Thanks for the detailed bug report. Makes fixing bugs so much easier.
You're welcome. I'll look forward to the fix in the next release, and in the meantime, your mention of it being related to deletion of the project led me to discover the workaround for now.

Speaking of CRCs, I've noticed that Bash seems to check for changes to a file's size in order to determine whether it should recalculate the CRC. If I make a change to a plugin that doesn't alter its size, then go to the Installers tab and refresh, my project stays green and I can't "sync from data" even though the file has changed. It may be a good idea to check a file's modification timestamp as well as its size to determine whether it's changed.
Edit: No, wait, that won't help for plugins since the timestamp gets reset due to "lock times" being enabled.
I've previously suggested adding a "refresh data" option for individual projects, as a quicker way to make Bash notice that there are changes to be synced without needing to rescan
everything. If that gets implemented, maybe it could ignore sizes and timestamps and just unconditionally recalculate CRCs for the selected project's installed files.