Pro Tools version 9.0.3 is out as a free download. It fixes a long list of bugs (30 pages) including:
1. Pro Tools cannot record to Mac OS X drives that have been formatted as “Case-Sensitive.”
2. Spotlight indexing can interfere with long record passes.
3. Because of Spaces, Pro Tools can appear unresponsive at launch, with the Menus grayed out and browsers inoperable.
4. Pro Tools could alter I/O routing in the session when using Import Session Data command and selecting the Match Tracks option.
And the hits keep on coming. See a complete list of fixes here.