Hi Kemo,
you're really carving your way through those missions!
I haven't revisited this one for a while, so maybe someone who has done it recently can give more specific advice.
Once I've made the transfer orbit injection and left the Earth's sphere of influence, I use IMFD "Target Intercept" and play around with the "Time to Ejection" parameter (TEj) to find the optimum date for the first correction (minimum dV required).
As a general rule you can make the next correction when you've travelled half the remaining distance to your target, and another when you've travelled half that distance and so on.
IMFD "Target Intercept" shows you the dV required to circularize your orbit around the target (Cir) so you can calculate how long that burn will be and start the burn at the correct time when approaching Apophis. Or there's an MFD somewhere that'll do that calculation for you, I think.
If you're trying for a particular orbit inclination at Apophis, you can use IMFD "Planet Approach" which I find usually works well when you're less than about 3 or 4 days away from target. A polar orbit is good for mapping, I guess.
Interestingly, the original mission proposal suggested orbiting Apophis, but I found that even a low orbit is not stable for long - it would use a lot of fuel to maintain it. You use less fuel just remaining stationary relative to Apophis, somewhere near the Sun-Apophis L1 position - similar to the Hayabusa mission.
Cheers,
Brian