I don't know of any disadvantage to using the lowest pulse rate that gets you the speed you want, but setting it arbitrarily high is counterproductive as you gain nothing, but narrow the gap between 'it works' and 'it doesn't work'.
On the other hand, setting the acceleration arbitrarily low can cause a host of problems, depending on what you are cutting. This forum has a very large percentage of hobby users who cut soft materials at very low rates. If you are in that category, then you are probably OK with very low accelerations.
For short moves, a slow acceleration Will not allow the motors to reach full speed and the net effect would be an overall slower travel, but also a very inconsistent travel as longer moves would be faster and one would imagine this makes the CV operation far less effective.
The big problem is going to come in if you are cutting 300 series stainless or most tool steels and/or you are using carbide inserts. You want to maintain a certain chip load per tooth especially with inserts as if you stop cutting and ride up over the material, it gets extremely hard extremely fast and now you have a hard-as-hell 'crust' for the next tooth to cut through . . . which it may or may not be able to do.
It does not seem logical to persons new to cutting metal, but tiny chip loads (which you will get during slow accell and decell) can cause an incredible amount of heat build up in the tool and the part. The re son is that the if the chips are the right size and are cut at the right speed, the lion's share of the heat will go overboard in the chip itself, instead of sticking around to make our tool bit turn pretty colors

Personally, I would run the acceleration a little below where the motors cannot tolerate. The faster the acceleration, the more consistent your feed rate will be on average. Mo' better to tool life and finish.