There is no way to make only one mod control all the ores, unless you add a mod like Custom Ore Generation and invest an unholy amount of effort.
Thermal Expansion was chosen by the FTB team to provide the common four mod metals - copper, tin, silver, lead - because the config file allows you to specify amounts and spawn heights for them. Thus, regardless of how many mods require these metals, TE can always provide for them because all you need to do is up the spawn amounts if necessary. Other mod ores, however? No deal.
TE also allows you to spawn additional vanilla ores ("additional" meaning "on top of what spawns naturally") if you set the "augmentvanilla" option to true and reload the client once.