One thing that works much like you are talking about is KMM Kotor Mod Manager. It has relatively become extinct in the moddern community because of stoffe's patcher utility. However another option is you could write a batch file to install multiple mods all at once and another to uniinstall. Your batch would simply run the executables for all the mods that use stoffe's patcher and copy paste those files that don't to overide.
Working so, we will learn history as a tree knows it; we will climb into shapes printed in the seed; we will become time made visible, years made fragrant; we will make of concentric memory a stem of praise; we will inhabit daylight at a trees own speed; we will be travelers who remain, patriots to this ground.
OMG I only rank 62.13018% geek or a Extreme Geek as it is referred to on the geektest at Geektest