I think you are far too sanguine about the actual text of PAIPO, precisely because it looks harmless when viewed out of context. In the context of the the TRIPS Agreement, Special and Differential treatment for LDCs and most importantly: the very specific position AGAINST substantive patent law harmonization that the African group has taken at WIPO, the WTO, the CBD, the UNFCCC and other international fora. The precise criticism is that it is an incoherent piece of legislation that fails to take into account the lessons of the EPO and the OHIM with such a process in Europe. So, beyond just the process, there is a substantive case against the PAIPO and its text.