This bug apparently can no longer be reproduced.

Using quick'n'dirty bisection (avoiding recompilations of the whole
source tree) I could track the fix back to commit 1bcbcb7e,
"lisp/progmodes/cperl-mode.el: Merge from Jonathan Rockway's version" by
Stefan Monnier, 21st Dec 2017.  This makes sense since this commit
introduced a new function 'cperl-calculate-indent' to cperl-mode.el.

The patch adds a test to verify correct behavior, and also adds the
relevant variable cperl-close-paren-offset (which is explicitly set in
the bug report) to the scope of the cperl-set-style setting "PBP".  This
variable is documented in the book, but wasn't included yet.
--
Cheers,
haj