For figured bass, the 6# figure is correct. Figured bass doesn't concern itself with chord roots, just intervals above the lowest pitch.
In functional terms, the harmony is V, with the 6 being a non-chord-tone anticipation of the third in the chord of resolution. It would still be noted as V6#. To help differentiate it from a first-inversion V chord, connecting lines could be added to show how the tones correspond to the following chord.
6 ——— 3
#
As a side note, cadential 64 chord are often labeled C64 to avoid the ambiguity of calling them I64 or V64.