1. Higher voltage
A fresh LIR2032 gives up to 4.2 volts, against 3 volts for a CR2032. That extra power can damage a device built for 3 volts.
2. Less capacity
A rechargeable coin holds roughly a fifth of the energy of a CR2032, so it runs out much sooner between charges.
3. When it’s the right choice
Only use LIR cells in devices made for them, like some rechargeable key fobs and gadgets with built-in charging. The manual or the old battery will say LIR.