I had an idea on where there was another option in the renderer options, the idea was that you could have the option to make Protons, electrons, photons, neutrons, gravitons, ect. Invisible, It might reduce lag, And make explosions more realistic. Just an idea.
There is technically a way, it's kinda dodgy and it only works until you close TPT.
Open the console (hit `, or click the C on the right)
Type into it tpt.el.phot.colour=0x00000000
This sets the colour of photons to have an alpha of 0, and the RGB values all to 0.
Repeat this but change phot to neut, elec, etc, and eventually you can make them all black.
They do still glow in fancy or fire display, but in a nicer looking way if you ask me.