Well really, the problem is that Fallout and Fallout 2 were never balanced... far from it. Very far from it.
Out of all the dozens and dozens of weapons available, only 1/3rd of them were actually good in the original games. In a multi-player game where everyone's stats are min-maxed MMORPG style, and where you level up entirely by grinding encounters rather than doing quests, this number falls to 1/8th or even lower.
The S.P.E.C.I.A.L. system has always been flawed. There are dozens of Perks, and less than 1/3 of them were actually good in the original games. In the PvP-centric, min-max environment of FOnline, this number, again, falls to 1/5 or even lower.
The same goes for certain ammo types, Traits, etc. To be fair, it seems that the Skills system is actually better in FOnline. There are very few totally neglected skills, unlike in the original Fallouts.
It's just tough. Fallout and Fallout 2 were old-school, wildly unbalanced games. The only way to re-balance weapons, Perks and such like is for a couple of talented people to set some goals, work hard, try out different stat arrangements, do some testing (maybe on some kind of test server), and develop a new, more balanced, more MMORPG-friendly way of doing these things.