Dear Experts,
I am defining a RPP source with dimensions 310 cm x 0.6 cm x 216 cm along XYZ centered at (0,0,0). I have defined this source using BEAMPOS as below:
At a first glance, your source implementation looks correct to me, and I would attribute the color difference in the two pictures only to the difference in the scale of the color band, to be checked.
Please, upload the .inp and .flair files of your project so that I can have a look at them.
Regarding your third point, when scoring BEAMPART you record the primary (source or beam) particles specified in the BEAM card (in your case photons), while when scoring PHOTON you are scoring all the photons passing through you scorer. The difference between the two lies in the fact that, with PHOTON, you score all photons passing through your scorer and not just those primary photons emitted by your source. Differences between the two should appear if there are available mechanisms to produce secondary photons. If your source is in vacuum for instance, you should not expect any difference.
I hope this starts answering your doubts,
Cheers,
Marco