I am not sure whether this is something that should be changed in tools.logging or tools.namespace. To be sure, at most one of them should change, if either. Stuart Sierra has mentioned in TNS-21 that the ns doc string shows :require :use etc. subforms always in parentheses, and not vectors. It might be best to change tools.logging's ns form.
tools.namespace expects (:require ...) and (:use ...) subforms of the ns form to be in lists, not vectors, otherwise it ignores them.
tools.logging has ns forms that use vectors like [:require ...] and [:use ...], and are thus ignored by tools.namespace.
The Clojure compiler seems to handle these dependencies just fine, but this may be just another case where it accepts more things than it is documented to accept.