As in the end this is a question of the Civ 3 code, I think the only person who has the answer is Flintlock.
My guess is, that the AI only counts resources that it already has access to by having them in the tradenet and having the proper techs for it.
The reasons for that guess: All resources in a Civ 3 game are placed on the map since turn 1. This can easily be recognized by having a look at the map of a game in DEBUG mode. Therefore, if the AI would also include resources it not yet has discovered them in the calulation and not has the techs for those resources, the "basic" calculations here should be the same with the small exception of the disappearing probability of some resources.
But from my feeling those times for the "basic" calculation during a game are not constant, but rising.
So it seems, that the "basic" calculation for the disappearance of resources that are placed on the starting map of a game is for all resources on the map, even if not a part of the trading net and not having the proper techs for those resources, there must be a minimal additional calculation time for the new location where that resource is reappearing again on the map.
Therefore in my eyes the calculation time for resources should be rising by the tradenet of the AI and the technological knowledge of resources inside that tradenet and an additional minimal calculation time for the new location of reappearing resources - but this is only a guess.