Double base at first

[U_of_I_Blue]

Ok, I work a summer rec league in our town who just plays other rec teams from the area. Played under FED. Other night I have no out, none on base and the following transpired. Ball hit to F3 who boots it and it rolls towards second base. Recovers in time and its a foot race directly to the bag between B1 and F3. We've got a double bag at first base. F3 leaps for the bag, beats the runner by a split second and then both end up in a heap on the field. First of all, we're lucky no one was injured as it was a pretty nasty collision with a couple of 13 year olds. Now, here's my question. F3 never touched the White portion of the bag. Rather his leap carried him over the white portion and onto the orange. Runner then touched orange a split second later. I called runner safe because unless the throw comes from the foul side of first base, the orange part of the bag is non-existant to the fielder. Or should I have called him out and then only changed to safe if the offense appealed it? Thanks for your input.