Could be that the regulator cannot take the voltage from three 18650's in series but that two 18650's and that monster NiMH in series will work. That NiMH cell has a higher capacity than those 18650's, so it should be okay to put all three cells in series.
It says 2x 18650 PARALLEL - which means 4.2V. Additional NiMH cell is connected in series with those two Li-Ion cells so the final voltage is ~5.5V.
Usually, SST90 have a little higher Vf, and together with great voltage sag from high current drain means that they cannot run its full potential from 4.2V power source, hence a little "boost" from NiMH cell.
It's also a usual practice to run SST50/90 from 4xNiMH cells in series (4.8V nominal, 5.6V fresh from charger) as direct drive.
Approx 5000mA NiMH battery is needed for this configuration to work reliable/safe on acceptable level.
I saw that and was a bit confused as well.
I would try running 3x 18650 IMR in parallel to minimize sag. If I lose a bit of max brightness I will take a much increased runtime as a happy trade off.
Maybe take the emitter out and lower the Vf. (apparently if you drive an sst-90 or sst-50 within an inch of it’s life a few times it will actually lower the Vf, a few people on “the other site” have done it successfully)