As for the seeds it is supposed that the seeds contain much of the "heat" of the chiles, so ,for us it is normal to keep the seeds(not to take them off) in order to have a hot sauce as possible.
As for the "mince" and "chop", let's help the blender to work well ;)
Look, the skin of the raw habaneros and jalapeños are not so smooth. The idea is making an as liquid as possible sauce.
But if you find easier to use the complete pieces of each chile, it is ok.
P.S. one piece of advice: if you try to make the sauces in a MOCAJETE as in our traditions, believe me that the flavor is better than using the metal blades of a blender.