Just giving a long-winded version of what James R said:
Asking whether or not the charge changes is a valid question, and I'm not sure how best to explain an answer. Hopefully on of the forum regulars will save me once I get into enough trouble, but I'll give it my best shot.
If you measure charge in a cloud chamber type environment, then yes, you are measuring charge and mass at the same time, because you're measuring the curvature of the track. However, particles like quarks sooner or later decay into stable particles that we're familiar with; electrons, protons, neutrinos and the like. Unless you're saying that the "extra" charge has disappeared by that time (in which case it reverts back to mass the moment it's measured, which makes the theory very strange), those particles should also exhibit unusual charge. So what we're really looking for is an electron or proton with very strange, possibly non-integer charge. And we've never found one: so far high-energy stable particles correspond to the appropriate recoil behaviors due to their mass. High energy nuclei do not experience measurable alterations to their electromagnetic behavior. An electron is an electron is an electron. Their electric field may distort if you view them at high velocities, but so far their charge is always their rest frame charge.
Which leads to one of the conclusions of quantum mechanics. The charge of a particle is an inherent physical property of the particle involved. Like spin, it does not change. It is a single number. It has no relation with the particle's energy or with its momentum. If this were not true, then measuring the charge/mass ratio of an electron by accelerating it through a simple accelerator would give you different values as you cranked the voltage up (adjusting for SR as usual). If this is true than the charge of a quark is fixed. If this is not, then we'll need to find out where these off-kilter daughter particles have gone.
If someone has a better argument, I think I need one.