I think i can solve this problem!
I had this too in a template before!
To be honest i don't know which of these two options solved it, but here I go:
1: Add a style="height:XXpx;" into the div that contains the new search box & to the div that contains the breadcrumbs, pms etc... | XX = a custom height, first one should be around 50px
2: add a style="float:left;" to the div that contains the breadcrumbs, pms and so on!
I hope I helped!