I don't know the input circuit of this recorder, but with many recorders, switching from mike to line level is done intelligently (by adjusting the feedback around the circuit stage), such that the input noise level in the line input setting is much lower than when the same inputs are set for microphone-level signals. In that case you would have nothing to fear from using the line-level inputs; "bypassing" the mike preamps would not be a relevant concept.
On the other hand some recorders, when you switch them to line level input, simply pad down the signal to microphone level and then amplify it with a high-gain input stage. Recorders like that should be avoided, or should be fed only with digital signals, but they are relatively rare as far as I've seen; the only example I've come across in many years is the Sony TCD-D10 Pro portable DAT recorder, whose analog inputs are almost unusable with professional microphones OR line-level equipment because of this stupid design approach.
--best regards