Most of the shots are blurry, which hurts my heart.
It's a bit hard for me to tell from the video rather than an original frame, but it looks like a lot of the blur is motion blur. This means the exposure times are probably too long for the level of motion and vibration where the camera is mounted.
Assuming you are using drivelapse http://chdk.wikia.com/wiki/Drivelapse
you might want to increase the Target Tv96 and possibly the Maximum Sv96
These are in funny units, so here's quick reference
shutter speed = tv96
1/125th = 672
1/250th = 768
1/500th = 864
ISO = sv96
800 = 768
1600 = 864
You can add or subtract 96 to either of these values to get the next "stop" in the sequence. I'd suggest keeping the shutter speeds 1/250th or shorter at the very minimum.
If your camera mount doesn't have a lot of vibration isolation, you might want to work on that too.
I can't really tell in the video if the focus is OK. It looks like some of the images are reasonably focused, but if the camera is trying to AF, it would probably miss a lot. The script tries to lock the focus at infinity, but it may or may not be working. Looking at individual stills might help clarify this.