The mod is slow, that's unfortunately just a fact that I can't do a whole lot about. However, with those numbers, it should still be manageable. Here are two things that I know are pretty slow - maybe you can optimize your setup somehow...
One is having a lot of different signals on the inputs to the combinators. Since I have to loop through all of the signals every update to figure out the highest one, it can be slow, tho this should only be a problem if you have hundreds of different signals on the inputs to a lot of combinators.
The other thing is recipe combinators that find recipes or uses. These currently loop through all the recipes you have researched when the highest signal changes. This can be a lot of work when mods come into play - especially things like the various recycling mods and other things that generate a lot of extra recipes.
With that said, I've been considering generting a big-ass lookup table for the recipe combinators, so I don't actually have to do the "calculation" over and over. I'll have to see how well that'll work, but I think it should help quite a bit.