About the Speed: You will almost always get other (lower) speeds while printing if you have used CubeitMod. Reason is the correction for Cubex's shitty Extrusion speed conversion.
The lower the extrusion speed is, the higher the differences might get. But this has to be like this and is not a bug.
For Example: You sliced something with Kisslicer and the Extrusion speed is calculated to be 3.8 mm/s
If this value is read by the Cubex software, the decimal will be cut, but the printing speed will not be changed accordingly, resulting in way to less material printed.
100%/3.8*3 =79% wich means that you will be missing 21% of material. CubeitMod compensates that by cutting the decimal as well, but afterwards change the printing speed by the same Percentage.
32mm/s / 3.8*3 = 25.3mm/s
If you set the Max Speed to "only" 48mm/s you pretty much cut the calculations done by Kisslicer. This roughly means that the Infill or Solid Factor can't get below 70% for very short Pathlengths. If this is sufficient to get good results then everything is perfect, but in case you still get too much Solid or Infill on short paths you need to increase the Max Speed. I think increasing the Max Speed to your X/Y Travelspeed should be safe as the Cubex can handle it.
If you have too less Solid or Infill on very short paths after you increased the Max Speed then you have to change the new variables in the Prefix Tab (e.g. set Shift to +1) to increase the Infill and Solidfactor for short pathlengths.
If you prefer the solution of limiting it with "low" Max Speed, be sure to adjust the optimum while printing the lowest Layer Thickness you are using.
Since I am a total noob at 3D printing, everything I stated above is pure theory based on the calculations inside CubeitMod. Because I know that reality sometimes is quite different from theory, do not hesitate to correct me with your experience of 3D printing reality

Cheers,
Tobi