ok... i think i've figured out the confusion...
in the current beta, there is this bug:
7) On File - Save As, it only saves "Web Page, Complete". No other file
types listed are saved.
which i've never encountered, because i only use the File>Save As... with 'Web Page, Complete', and not very often at that... but what i seem to remember about 0.6 is that it would, at some point into a session, simply stop saving things... so, umm... in that sense, the bug i *think* the original poster was referring to seems to be fixed, but there's a new, similar, but consistent and limited one that has opportunistically popped up into it's niche... does that sound right?