What I did (in addition to my first post) was I duplicated the carousel module and replace every occurence of 'carousel' with 'secondcarousel' so that it was unique. This was important since the carousel uses an id for displaying the products via javascript.
Another alternative would be to rewrite the module so that it can display products on multiple ids, but the duplication seemed more straight forward for me. One advantage of the duplication is that one can set different no. of products to display in each module.
I then added the hooks to the install-routine of the second carousel and just installed it as a new module.