We do the same thing just not as many. We bought some silver prism snowflakes (don't have to spray) and hang them. There are a few large ones and the rest are small.
We hang them in the livingroom every year and they sparkle nicely.
Can't say I ever noticed the holes after and we have reg. ceiling tiles...but then again I've never looked...don't make a habit of walking around with my head up...but I can see your point after years of it!