Hi Creativeraul,
If I get the Problem correctly, and I would have loved if you specified it above: The Cloner produces only more than one clone, if you dial in more than three, e.g., if you selected seven clones you get three?
I can even set a new Cloner in it, place a sphere under it and experience the same problem.
You have to copy your file into a new empty scene file, something has screwed your file up. Perhaps I missing something, as I do not have the plug ins (see image). It is difficult to tell without.
Otherwise dial in 9 or 12 as clones to get a few, but it feels not OK to continue with that file. I would suggest to get into contact with the Support. http://www.maxon.net/support/support-questions.html
If feels like a “code-line” from a plug in escaped… wild guess. Perhaps restart C4D before you check in with the support.
BTW, set the segments higher for the Cube in the Boole. Not that Polygons are suggested as being part of a Boole set up (vs a Volume Model as the Cube) but it will help.
I checked the file in R14, R15 and R16, same result, which makes me believe that it is not the app here, it is the file.
The interesting part is given in the fact that even if I use a polygon with three segments in the Object field, and specify the clones to sit in the Polygon center, they don’t show up.
All the best
Sassi