They won 9 premierships in the VFA after the end of 1896 seasons split when 8 of the 13 VFA clubs formed the VFL for the next season.The Bulldogs won a number of premierships in the VFA before joining the VFL. Your club should recognise this.
The part that Colin Carter wants to claim for his AFL competition record keeping seems to be only before the split into two different leagues, of which Footscray won no premierships in period from 1870 to 1896.
Still an impressive 9 flags between 1897 to 1924 in the revamped VFA after the split.
East Fremantle won 11 flags in the WAFA/WAFL in same time period as Footscray 9 in the VFA.