Is there a list of projects not found in Boinc Manager?
I know QChemPedIA doesn't appear in there, but it does show in Boinc Bam (is how I found it).
Are there any other projects that aren't found in BAM or Manager?

The list of projects shown in BOINC Manager is (in principle) the same as the list of projects shown on Choosing BOINC projects - which is probably easier to work with.

The list does change periodically, as new projects put themselves forward for inclusion, or old projects run out of data or energy. So at any given moment, a project might appear on one version of the list but not on the other - BOINC Manager only fetches a new list once every 14 days.

Occasionally you get a project that is relatively short term such as climateathome which I don't think ever appeared on the list. I ran it for a while when CPDN had no tasks. I ran something else that wasn't on the list and the website said you had to manually put in the url and password after signing up but can't remember what it was, just that it was over ten years ago and also during one of the periods CPDN had no work.