Having said that, I'm somewhat underwhelmed with Boelube. The paste is only "paste" up to about room temperature. After that it goes to "goopy liquid that gets on everything". Maybe it's just mine, but it seems to liquefy at around 75 degrees or so. I have the stick stuff also, and it's a bit crumbly and little crumbs get everywhere. I think I'll switch to beeswax in the future. I have a lifetime supply.
Boelube has excellent properties for cutting tools..... I don't use it for a lubricant beyond that. As you witnessed, it flows as the tool heats, which is exactly what you want.
I wouldn't worry about lubrication for #8 screws, which are the bulk of what you are dealing with, but that is just me. It won't hurt, but I use a low torque, low speed, electric screw driver and it isn't an issue. I have never had one break off, not even close. Good Bits are a MUST!
For #4 and #6 screws I dip the very end in a light machine oil.
If I find the time, I will look for the specific Mil spec on what we use in the Van's kits, but other specs that I have seen call out dry lubricants where they call anything out.
I am not sure if tapping would harm the spring back qualities of the pinched down portion that provides the "locking". Just never needed to tap them for any reason.
I have found far more bad nutplates, poor threads, missing threads completely, etc... than I would have thought possible with an MS part however.