If they have Vmp values within 10% of each other, yes. Both panels must be suitable for your battery voltage.
PWM controllers must have the correct voltage panel on them, or they waste power. PWM works by shorting the panels to the battery forcing them to operate at battery voltage. Running a 17Vmp panel at 14.4V is a notable but tolerable penalty. Running a 30Vmp panel at 14.4V more than cuts the panel output in half.
It is also important that you not over-panel a PWM controller as they can't regulate current.
What battery voltage?
100W Vmp?
220W Vmp?