Personally, I wouldn’t put any holes in your pop top, just inviting potential leakage issues later on. There are some threads about this on the forum, with mounting solutions that don’t include drilling. One way I’ve mounted is with using 3M VHB tape on the underside of the aluminum angle, I cut a 36” piece down and used 9” pieces at each corner. I did this on our travel trailer, works great and is holding up well.
Do you have Yakima tracks running the length of your pop top? I’ve run angle aluminum anchored into those to support panels in the past when we had our SMB pop top.
If neither of these are an option, at the least, you should highly consider drilling into and through your pop top on the OUTSIDE of the canvass area.
'03 Ford E350 7.3L Diesel
(de)SMB'd Custom RB-50
Quigley 4X4 w/Deavers & Agile Offroad's R.I.P. package
CCV High Profile Pop Top