Fill and repeat
Have you considered filling the bad holes and starting over?
I have not done this myself, but just had this conversation with another RVer this past weekend. I'm currently working on my cowling in advance of my engine arriving. I'm struggling with drilling too many holes in cowling prior to having final nose-cone location to align with.
The conversation included, "well, if it is misaligned, you can just fill the holes and start over." ...
... not sure I like this tho.
Ronald F. Chisholm
RV-12; N439CH - Flying!
2017 dues paid!