It would be a lot easier to help if I knew what spread you were aiming for originally, and what spread you were hitting. However, if you are just trying to hit ANY shiny PID to verify that it works, then here's something you can try. Start the game, figure out your initial seed (through a wild capture), find a shiny PID on that seed (make sure it's your ID/SID in RNG Reporter), and then Tap/Flip however many times you need to. Keep track of which seed and frame you are aiming for and which one you hit, and then with that info you can deduce what's going wrong (if you are still missing your target).
EDIT: @Aviator - 2>1 will count as a flip. If you are starting with the journal on 1 that will also count as a flip. It's easier to think about it as counting the number of times you see a page with a "____ caught/defeated" message.