Further to Jasons point about drill wander if using a filler where there is still some overlap between metal and the filled hole.
Realistically it’s best to use an oversize hole so you are only drilling filler.
If overlap is the only way you need a good starter mark and some sort of drill guide.
For the starter mark something better than a pop mark is pretty much essential. For baby stuff I used to like a no 0 centre drill but you have to be very careful of the 1/32″ diameter point. A no 1 is way better but sometimes the 1/8″ point is too big. Nowadays I’ve gone all modern and invested in a couple of spotting drills. Even stiffer than centre drill and much less vulnerable.
Frankly for a job like that I’d not only knock up a bending former but also arrange some form of guide plate for the drill. That sort of narrow flange bend is often not dead flat despite the main shape following the correct bend angle. The slightly not flat portions are very effective at dragging a small drill off line. Showing it a milling cutter to make the surface flat is always a good idea.
When working on narrow flanges it can be quite difficult to mark hole positions out correctly. I have gear to make it easy but the price performance ratio of mine is such as to be inappropriate for the shopping list until a workshop is well established.
Back in the day making things like ruler holders, scribing blocks et al followed by “finding a nice piece of flat plate glass” to run them on were considered essential ab initio projects for folk just getting started so they could do the necessary marking out.
To be honest in this day and age going direct to a mill fitted with a decent DRO for drilling rather than setting up for traditional making out is probably a better way. Given a bit of thought and engineers low cunning a drill guide can be made in a manner that makes marking out far easier than trying to work direct on the flange.
Those apparently trivial little components can take much more making than it appears at first sight.
Clive