A system for heating a hydrocarbon resource in a subterranean formation having a wellbore extending therein may include a radio frequency (RF) source, a choke fluid source, and an elongate RF antenna configured to be positioned within the wellbore and coupled to the RF source, with the elongate RF antenna having a proximal end and a distal end separated from the proximal end. The system may also include a choke fluid dispenser coupled to the choke fluid source and positioned to selectively dispense choke fluid into adjacent portions of the subterranean formation at the proximal end of the RF antenna to define a common mode current choke at the proximal end of the RF antenna.