replaceing mic input with line in on fm transmitter

Your FM transmitter has the electret mic and transistor not biased properly. It is missing pre-emphasis that all FM radio stations have so it will sound low level and muffled when heard on a normal FM radio since all FM radios have matching de-emphasis.
Is your line level signal stereo or mono?
The transmitter circuit must have the 4.7k input resistor changed to 47k and have an input coupling capacitor added.
 
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