I seem to remember a number of them didn't need to take the funds, but were arm-twisted into it so that it would look like a general national problem as opposed to bailing out some well-connected (yet incompetent) cronies.
The industry needed an infusion of cash, and they spread it around a bunch of the biggest players.
Ford ticked up after not taking a handout, larger well governed banks had no such opportunity.
Deposits up to $100K (or thereabouts) were insured by the FDIC, so even under a run, the savers in the bad banks were not going to be left high and dry; and perhaps wiser about where they put their money in the future. Perhaps the Federal Government didn't want to see the FDIC invoked.
Instead, a precedent was set; bad behavior was not punished (by way of market action), and good behavior is tainted by association (via political demonizing).