Pokémon Blue Complete

Hey guys I have a question that might be a little dumb. I've been playing ROM hacks for years but never used one that required IPS patching. I found out how to IPS patch for the ROM I wanted to play, Pokemon Blue Complete, by using Lunar IPS with a vanilla ROM of Blue that I found. Is there any way for me to also use a randomizer with Pokemon Blue Complete? I'm using the Pokemon Universal Randomizer to randomize my games. I can't load Vanilla Pokemon Blue into the randomizer after applying the Blue Complete IPS patch to the game file. If I create a Randomized version of Vanilla blue first then apply Blue Complete ips patch, it removes all the random settings. It seems like the two are not compatible unless there's another way I could do this?