Drive appears empty but shows over 1TB in Google Drive File Stream

I launch Cryptomator and reveal the drive and the folder is empty. There were files there months ago but I have moved them toa different drive. But if I check Google DriveFiles Stream, I can see the encrypted folder structure and if I check the size it is over 1TB. Any ideas?

Screen Shot 2021-01-24 at 6.14.59 PM

Well, a Log file could help. Any WARN or ERROR messages? Which volume type did you choose? WebDAV? Fuse? Does the error appear with both types?
Can you access the vault directly using cyberduck or a mobile app?

Apart from the questions asked by @Michael, this could be a case of

Ahh, whoops. Log below. Fuse, macOS 11.1. Even though the directory seems empty, I have a suspicion some folders “disappeared” maybe?

17:55:33.933 [main] INFO  org.cryptomator.launcher.Cryptomator - Starting Cryptomator 1.5.11 on Mac OS X 10.16 (x86_64)
17:55:34.524 [JavaFX Application Thread] INFO  o.c.ui.launcher.FxApplicationStarter - JavaFX Runtime started.
17:55:35.470 [JavaFX Application Thread] WARN  o.cryptomator.ui.fxapp.FxApplication - has visible stages: true
17:55:41.131 [App Scheduled Executor 01] INFO  o.c.common.settings.SettingsProvider - Settings saved to /Users/xxx/Library/Application Support/Cryptomator/settings.json
17:55:42.322 [JavaFX Application Thread] INFO  o.cryptomator.ui.fxapp.UpdateChecker - Current version: 1.5.11, lastest version: 1.5.11
17:55:53.253 [App Background Thread 004] INFO  org.eclipse.jetty.util.log - Logging initialized @20166ms to org.eclipse.jetty.util.log.Slf4jLog
17:55:53.305 [App Background Thread 004] INFO  o.c.frontend.webdav.WebDavServer - Binding server socket to localhost:42427
17:55:53.312 [App Background Thread 004] INFO  o.e.jetty.server.AbstractConnector - Started ServerConnector@5657449d{HTTP/1.1, (http/1.1)}{localhost:42427}
17:55:53.314 [App Background Thread 004] INFO  org.eclipse.jetty.server.Server - jetty-9.4.35.v20201120; built: 2020-11-20T21:17:03.964Z; git: bdc54f03a5e0a7e280fab27f55c3c75ee8da89fb; jvm 15.0.1+9
17:55:53.331 [App Background Thread 004] INFO  o.e.j.server.handler.ContextHandler - Started o.e.j.s.ServletContextHandler@4d0691f8{/,null,AVAILABLE}
17:55:53.332 [App Background Thread 004] INFO  org.eclipse.jetty.server.Server - Started @20245ms
17:55:53.332 [App Background Thread 004] INFO  o.c.frontend.webdav.WebDavServer - WebDavServer started.
17:55:53.351 [App Background Thread 004] INFO  org.eclipse.jetty.server.session - DefaultSessionIdManager workerName=node0
17:55:53.352 [App Background Thread 004] INFO  org.eclipse.jetty.server.session - No SessionScavenger set, using defaults
17:55:53.352 [App Background Thread 004] INFO  org.eclipse.jetty.server.session - node0 Scavenging every 660000ms
17:55:53.355 [App Background Thread 004] INFO  o.a.j.w.server.AbstractWebdavServlet - authenticate-header = Basic realm="Jackrabbit Webdav Server"
17:55:53.355 [App Background Thread 004] INFO  o.a.j.w.server.AbstractWebdavServlet - csrf-protection = null
17:55:53.355 [App Background Thread 004] INFO  o.a.j.w.server.AbstractWebdavServlet - createAbsoluteURI = true
17:55:53.356 [App Background Thread 004] INFO  o.e.j.server.handler.ContextHandler - Started o.e.j.s.ServletContextHandler@4c653033{/u3Vw_2oGTbu9/MEDIA,null,AVAILABLE}
17:55:53.356 [App Background Thread 004] INFO  o.c.f.w.s.WebDavServletController - WebDavServlet started: /u3Vw_2oGTbu9/MEDIA
17:55:53.359 [App Background Thread 004] INFO  o.c.f.w.s.WebDavServletController - Mounting http://localhost:42427/u3Vw_2oGTbu9/MEDIA using org.cryptomator.frontend.webdav.mount.MacAppleScriptMounter
17:55:53.891 [App Background Thread 004] INFO  o.c.ui.unlock.UnlockWorkflow - Unlock of 'MEDIA' succeeded.
17:55:54.260 [webdav-037] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.261 [webdav-037] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.274 [webdav-029] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.275 [webdav-029] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.283 [webdav-021] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.283 [webdav-021] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.295 [webdav-026] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.296 [webdav-026] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.308 [webdav-034] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.308 [webdav-034] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.320 [webdav-025] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.320 [webdav-025] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.422 [JavaFX Application Thread] INFO  o.cryptomator.ui.common.VaultService - Revealed MEDIA
17:55:54.793 [webdav-026] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.794 [webdav-026] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.802 [webdav-021] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.802 [webdav-021] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.811 [webdav-029] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:55:54.812 [webdav-029] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:26.043 [webdav-037] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:26.044 [webdav-037] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:26.066 [webdav-034] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:26.067 [webdav-034] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:26.081 [webdav-025] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:26.081 [webdav-025] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:59.976 [webdav-039] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:59.977 [webdav-039] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:59.997 [webdav-021] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:56:59.998 [webdav-021] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.009 [webdav-029] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.009 [webdav-029] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.027 [webdav-026] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.027 [webdav-026] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.040 [webdav-034] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.040 [webdav-034] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.050 [webdav-025] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.050 [webdav-025] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.062 [webdav-039] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.063 [webdav-039] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.075 [webdav-021] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:00.076 [webdav-021] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:38.425 [webdav-029] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:38.432 [webdav-029] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:38.451 [webdav-026] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:38.451 [webdav-026] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:38.463 [webdav-034] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:38.463 [webdav-034] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:48.624 [webdav-025] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:48.625 [webdav-025] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:48.631 [webdav-060] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:48.631 [webdav-060] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:48.640 [webdav-021] WARN  o.c.cryptofs.CryptoPathMapper - Did not find valid content inside of /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:57:48.640 [webdav-021] WARN  org.eclipse.jetty.server.HttpChannel - handleException /u3Vw_2oGTbu9/MEDIA/*INCOMING/ java.nio.file.NoSuchFileException: /*INCOMING/.AU.VnNcg: Could not determine type of file /Volumes/GoogleDrive/My Drive/MEDIA/MEDIA/d/JR/ASF2HNKGQAVB3IC5JEM3RAPZJJJR3F/zf7fUVZKXdDixf9PqSAWT7i7yAmel6irNg==.c9r
17:59:21.453 [JavaFX Application Thread] INFO  o.cryptomator.ui.fxapp.UpdateChecker - Current version: 1.5.11, lastest version: 1.5.11
18:00:46.959 [App Background Thread 005] INFO  o.e.j.server.handler.ContextHandler - Stopped o.e.j.s.ServletContextHandler@4c653033{/u3Vw_2oGTbu9/MEDIA,null,STOPPED}
18:00:46.959 [App Background Thread 005] INFO  o.c.f.w.s.WebDavServletController - WebDavServlet stopped: /u3Vw_2oGTbu9/MEDIA
18:00:46.963 [JavaFX Application Thread] INFO  o.cryptomator.ui.quit.QuitController - Locked MEDIA
18:00:46.986 [main] INFO  org.cryptomator.launcher.Cryptomator - UI shut down

Your log file says you are using WebDAV, not FUSE.
Seems to me that there’s something wrong with the access to the files via file stream.
Maybe this is related to WebDAV. Can you please switch to FUSE and try again?
Please check the fuse version you have installed and update if not the latest is installed.
Recently someone here reported problems with Google’s file stream on Mac as well and solved it by clearing google file stream cache.

Seems not to me that the files have disappeared. Then there would be no 1TB disk usage on google drive.
If you have the free space, you can also make them offline available and then try to open the vault and check if somethings missing. (Or use cyberduck as I already mentioned).
Please check @infeo link as well.