The transistor is always on, I fail to see what should happen here?
The traditional method to measure internal resistance is to apply an AC current, and measure the resulting AC voltage. The circuit looks very different. A typical implementation will be simultaneously more complicated (more components required), and simpler (consisting of only a current source and a voltmeter). The source can be an oscillator and buffer amplifier or switch, and the voltmeter can be an AC coupled amplifier and precision rectifier, or a synchronous rectifier (analog switch), or...
Note that a SPICE "battery" is actually an ideal voltage source, i.e., Rs = 0 by definition. You will need to find a model that describes a battery, to be able to test your circuit with something realistic.
Note also that, in general, the internal resistance varies with frequency, typically in a sqrt(f) manner (this is due to ionic diffusion within the battery). This gives an impedance which is equal parts capacitive and resistive, so that it is difficult to speak in terms of
resistance as such, even at very long time scales (which implies a large change in charge state, for which we of course expect a change in terminal voltage). At shorter time scales (~kHz), it is capacitive (the capacitance of the battery plates themselves), and at still shorter times (~MHz), inductive, and so on (wiring stray inductance, radiation losses for the wiring as random antennas, etc.).
Tim