Skipness,
The tower controller only asks aircraft heading South-East towards Honiley to confirm the SID allocation.
There are two SIDs which finish at HON when 23L/R is in operation, the HON1R/Y and the LISTO1R/Y.
LISTO SIDs are for aircraft with a MTOW of 35 tonnes or less plus 146s, ERJs, CRJs and some other small jet types. The LISTO SID consists of a left turn towards LISTO and does not feature the noise abatement turn to the West of Knutsford which is a feature of the HON1R/Y SIDs used by larger aircraft.
Because both SIDs lead to HON, I believe there is some history of larger jet aircraft incorrectly flying the LISTO SID instead of the HON SID, which is why Tower now seek confirmation of which procedure you have been cleared to fly.
I agree that the taxiway layout can be confusing, particularly at the base of Pier B where taxiways B,K,J and F all intersect - there is also a disparity between the airfield signage and the Jeppesen charts in this area which can cause further confusion.