Hi Mitch,
There is something you can do.... once you've fixed the problem you caused by running your shaft whilst the greaser was out of action, don't cause the same problem again by running your shaft next time your greaser is out of action!
Restoring lubrication to machinery damaged through being deprived of it isn't usually going to fix it. The increasing squeaking should have been a warning but, hopefully, since that greaser is there to keep the stern seal watertight, the fix might not as expensive as running other moving machinery without proper lubrication can sometimes be. If you get another issue in your drive train, don't run it until you're completely certain it's safe to do so.
Not much help this time, I know, but it might stave off another issue later. Fingers crossed the issue's not to hard to correct. Good luck.