If the connectors are correct then for BNC the pin geometry is the same between 50 and 75 ohm parts, but the insulating sleeve extends further in one variant.
Thus 50 ohm and 75 ohm BNC parts should mate without damage (This is **NOT** true for N type connectors!).
There have however been some BNCs made that did not meet normal specifications, I forget who the guilty party was, but someone stuffed this up, so there were some 75 ohm parts around that did not behave well with 50 ohm mates.
I am surprised by you having trouble finding proper 50 ohm parts, Telegartner/Huber-Schurner/MA-Com/Amphenol should all have the good stuff I would expect.
@100MHz it probably does not much matter, unless you are trying to make metrology grade measurements, so use whatever comes to hand.
Regards, Dan.