I recorded a bass line on my keyboard (midi) into Sonar following a real played bass line. The real bass line wasn't perfect to the click and subsequently, the midi part is now off.
 
What is the best way to put notes on the grid, should I manually move them? I tried the quantize feature in Sonar and it cuts off notes short, doesn't fix it, or moves them too much.
 
Just wondering if there is an easier way, thanks!

Ive gone through this many times before.
What I do is re record the bass to the metronome. make sure the bassline is lined up on the grid. this gives quantize a better chance at making smarter shifts.
 
Someone might know a way, like using a CAL Script. Im more of a redo person.
Use a scratch track of kick and snare only. this will emphasize the metronomes down+up beats.
I often find a click track is not enough to keep me in time. I need a solid beat, like kick on 1, snare on 2, kick on 3, snare on 4.
loop that and drag it out. re record the bass line.

An alternative to re-recording the part would be to just re-do the specific places where the timing is awkward. That's what punch-in recording was invented for.
 
Or, you can listen to the part (don't look at the PRV!) and mark each place that has an obviously out-of-place note. See if you can't just fix those individual notes instead of doing a wholesale quantization. Listening blind will reveal that just because a note doesn't fall perfectly on the grid, it can still sound right. No sense fixing things that don't need fixing.
 
One thing you never want to do is let any software do the quantizing for you. Always scootch the notes by hand, and don't obsess over making sure every one of them falls exactly on the grid. It just isn't necessary, and in fact you can actually hurt the song by over-quantizing.