Transmuters do not have the full benefit of where command without dropping out of duo (and thus being spotted, as dropping out of duo has a serious lag associated with it). They are restricted to using "where name", which doesn't work if you sneak.

Have wimpy at 50%, to maximize your chance of escaping if they do land neuro. Remember that neuro doesn't work as well on someone who is fighting another (similar to most lagging abilities).

Use item search to find some nonlim sv_para gear -- two -10 rings will go a long way. Also gear for +int a bit, because a savvy transmuter will maximize his chances by mental jolting you first.

If you rank with someone outside their range, many classes can word you if you get frozen.

EDIT: I agree that they can make solo ranking impractical for many builds, but transmuters sitting at 37 are no worse than assassins sitting at 35, or Grokko, or reaver rangers camping Redhorn, or a million other inconveniences of CF. The real game begins at hero anyway.