Which packages should be loaded after hyperref instead of before?

• cleveref

Many others are documented in section 6 of the hyperref manual. Some are more complex than simply loading after hyperref. Here are some more common ones...

• amsrefs
• float before hyperref before algorithm
• chappg
• sidecap
• linguex

• geometry: From the User manual:

  With mag <> 1000, no truedimen and hyperref, hyperref should be loaded before geometry. Otherwise the resulted PDF size will become wrong.

• robustindex

• hypdestopt, hypcap, hypbmsec

• attachfile

• showframe, showidx (which disables the \hrefs in the index but in this loading order at least documents compile at all)

• uri, pageslts, regstats

• refcheck

and probably also further packages with \RequirePackage{hyperref}. A quick search in TeX Live 2011 resulted in this list:

• amsrefs
• attachfile2
• bugtracker (part of pgfplots)
• classicthesis
• doi
• dtx-style (part of thuthesis)
• eforms
• exerquiz
• hypgotoe
• insdljs
• ltxdockit
• opcit
• prerex
• rec-thy
• tdclock
• toptesi
• ydoc-code and ydoc-desc (both part of ydoc; note, that ydoc-doc contains \hypersetup without loading hyperref) )

Packages with \RequirePackage[<some option(s)>]{hyperref}:

• beamerbasearticle
• bidituftehyperref
• chextras
• cmpj
• dtk-pdf
• easy-todo
• hep
• hrefhide
• ifmslide
• lstdoc
• ocgtools
• pdfcomment
• pdfscreen
• pdfx
• rvdtx
• strukdoc
• ucshyper

Other common ones include

• bookmark
• glossaries