Programs like Human Terrain Systems Program and the Minerva Initiative offer funding to anthropologists whose work can benefit defense planning. Many in anthropology see this as a problem for the discipline. What do they find problematic?

the "weaponizing of anthropology"

Explanation:

Programs like Human Terrain Systems Program and the Minerva Institute Initiative fall under controversial issues because some people find them problematic. Some say that these programs are "weaponizing anthropology" because they go against the "Code of Ethics" ("do no harm to those they study") being followed by anthropologists. This means that the information collected by the anthropologists will be used for military purposes against humans (which contradicts the Code of Ethics). This also provided the possibility that anthropology will be connected to war machines.

So, this explains the answer.