You should realize that the pkg tools have gone thru *major internal changes* over the last month or so.
If you see weird things happening, now is a really good time to report them, before it's too late... Also, the 5.4 -> 5.5 update is going to be "fun": there was a kernel flag day. The proper way to update packages will be along the lines of: in 5.4: pkg_info -mq >list pkg_delete * (update to 5.5) in 5.5, install new packages: pkg_add -z -l list Again, there might be issues. Now is a very good time to start looking...