2 questions:

1. Is there a way to keep a subfolder of a 'Web Site' project from being scanned for files to check in? Scenario: Certain subfolders contain user uploaded/generated content, don't wish to check them in.

For testing, I have to copy the content under the web project in order to debug/etc.. There are THOUSANDS of files in the test batch; making loading the project extremely slow when first loading it.

2. It appears that it is wanting to check in some PDBs from referenced dlls in the bin directory of a 'web site' project - is there a way to disable that?

For both 1 & 2, the only way I can think of to avoid scanning some sub-directories of a project is to make it so those sub-directories are not under version control -- i.e. make it so there are no associated archive directories for the sub-directories that you want to skip. The simplest way to remove the 'offending' archive directories is to use Windows Explorer to delete them (carefully!!).

Another point to note is that the very first time that QVCS-Pro scans a directory, it builds the QVCS cache file for that directory. This can take some time, and means that the very first time a directory is viewed, it will take a while longer to capture version control status than it will after the cache has been created. For directories with lots of files, this delay is more noticeable.... so maybe the slowness you are seeing is caused by the building of the cache... and subsequent use of the directories will be fast enough to be okay in speed.