Yeah it will work. You would also save money that way. Indigo is in your system for 4 hours (8-12 for gene expression) so you wouldn't want to overlap between doses. This is what Thib said in a recent spill about how he's doing it currently:
"Christian Thibaudeau: I know that I pulse 3 times a day (twice if I train twice) have a peri-workout protocol with each session and will have an eating period from 6 to 10. Don't ask me what I eat, I honestly do not stress over that either."
He stated in another spill, can't find it right now, that he takes two doses of I3G a day. One before peri-workout, one before his eating period of 6-10pm.