In particular:
"You see lots of very good ideas (like proper source control)" - you mean the group that still uses VSS 4.0 on a network share b/c they're terrified of moving their repo to Git (or even SVN)?
"You get to work with lots of clever people" - no, you get to work with people who work there for no reason other than they live close to the office and have spent the last 14 years building an impenetrable fortress around themselves.
"They have lots of perks" - Yes, that one day a year I got to donate $5 to cancer research so I could wear bluejeans (collared shirt still, of course) makes it all worth it. I'll take my catered breakfasts, lunches, impromptu beer runs, work-from-anywhere policy and unlimited vacation days, thank you.
"You are not going to be sent on that week-long training course on using Oracle or have your part-time MBA fully-funded while at that boot-strapping startup." - Ok, starting to think this is a case of Poe's law in action...
Yeah startups (and small companies) come with their share of headaches, but I'll take it any day over the soul-crushing, creativity-stifling cubicle hell that is a big company.