sorry, forgot to check M-x list-load-path-shadows RET
found shadows not in ~/.emacs.d/lisp but in ~/.emacs.d/elpa:
.emacs.d/elpa/org-20171127/ox hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox
.emacs.d/elpa/org-20171127/ox-texinfo hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-texinfo
.emacs.d/elpa/org-20171127/ox-publish hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-publish
.emacs.d/elpa/org-20171127/ox-org hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-org
.emacs.d/elpa/org-20171127/ox-odt hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-odt
.emacs.d/elpa/org-20171127/ox-md hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-md
.emacs.d/elpa/org-20171127/ox-man hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-man
.emacs.d/elpa/org-20171127/ox-latex hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-latex
.emacs.d/elpa/org-20171127/ox-icalendar hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-icalendar
.emacs.d/elpa/org-20171127/ox-html hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-html
.emacs.d/elpa/org-20171127/ox-beamer hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-beamer
.emacs.d/elpa/org-20171127/ox-ascii hides /Applications/Emacs.app/Contents/Resources/lisp/org/ox-ascii
.emacs.d/elpa/org-20171127/org hides /Applications/Emacs.app/Contents/Resources/lisp/org/org
.emacs.d/elpa/org-20171127/org-w3m hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-w3m
.emacs.d/elpa/org-20171127/org-version hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-version
.emacs.d/elpa/org-20171127/org-timer hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-timer
.emacs.d/elpa/org-20171127/org-table hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-table
.emacs.d/elpa/org-20171127/org-src hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-src
.emacs.d/elpa/org-20171127/org-rmail hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-rmail
.emacs.d/elpa/org-20171127/org-protocol hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-protocol
.emacs.d/elpa/org-20171127/org-plot hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-plot
.emacs.d/elpa/org-20171127/org-pcomplete hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-pcomplete
.emacs.d/elpa/org-20171127/org-mouse hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-mouse
.emacs.d/elpa/org-20171127/org-mobile hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-mobile
.emacs.d/elpa/org-20171127/org-mhe hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-mhe
.emacs.d/elpa/org-20171127/org-macs hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-macs
.emacs.d/elpa/org-20171127/org-macro hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-macro
.emacs.d/elpa/org-20171127/org-loaddefs hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-loaddefs
.emacs.d/elpa/org-20171127/org-list hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-list
.emacs.d/elpa/org-20171127/org-irc hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-irc
.emacs.d/elpa/org-20171127/org-install hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-install
.emacs.d/elpa/org-20171127/org-inlinetask hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-inlinetask
.emacs.d/elpa/org-20171127/org-info hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-info
.emacs.d/elpa/org-20171127/org-indent hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-indent
.emacs.d/elpa/org-20171127/org-id hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-id
.emacs.d/elpa/org-20171127/org-habit hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-habit
.emacs.d/elpa/org-20171127/org-gnus hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-gnus
.emacs.d/elpa/org-20171127/org-footnote hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-footnote
.emacs.d/elpa/org-20171127/org-feed hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-feed
.emacs.d/elpa/org-20171127/org-faces hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-faces
.emacs.d/elpa/org-20171127/org-eshell hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-eshell
.emacs.d/elpa/org-20171127/org-entities hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-entities
.emacs.d/elpa/org-20171127/org-element hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-element
.emacs.d/elpa/org-20171127/org-docview hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-docview
.emacs.d/elpa/org-20171127/org-datetree hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-datetree
.emacs.d/elpa/org-20171127/org-ctags hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-ctags
.emacs.d/elpa/org-20171127/org-crypt hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-crypt
.emacs.d/elpa/org-20171127/org-compat hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-compat
.emacs.d/elpa/org-20171127/org-colview hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-colview
.emacs.d/elpa/org-20171127/org-clock hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-clock
.emacs.d/elpa/org-20171127/org-capture hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-capture
.emacs.d/elpa/org-20171127/org-bibtex hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-bibtex
.emacs.d/elpa/org-20171127/org-bbdb hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-bbdb
.emacs.d/elpa/org-20171127/org-attach hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-attach
.emacs.d/elpa/org-20171127/org-archive hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-archive
.emacs.d/elpa/org-20171127/org-agenda hides /Applications/Emacs.app/Contents/Resources/lisp/org/org-agenda
.emacs.d/elpa/org-20171127/ob hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob
.emacs.d/elpa/org-20171127/ob-tangle hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-tangle
.emacs.d/elpa/org-20171127/ob-table hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-table
.emacs.d/elpa/org-20171127/ob-sqlite hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-sqlite
.emacs.d/elpa/org-20171127/ob-sql hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-sql
.emacs.d/elpa/org-20171127/ob-shen hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-shen
.emacs.d/elpa/org-20171127/ob-screen hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-screen
.emacs.d/elpa/org-20171127/ob-scheme hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-scheme
.emacs.d/elpa/org-20171127/ob-sass hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-sass
.emacs.d/elpa/org-20171127/ob-ruby hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-ruby
.emacs.d/elpa/org-20171127/ob-ref hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-ref
.emacs.d/elpa/org-20171127/ob-R hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-R
.emacs.d/elpa/org-20171127/ob-python hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-python
.emacs.d/elpa/org-20171127/ob-plantuml hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-plantuml
.emacs.d/elpa/org-20171127/ob-picolisp hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-picolisp
.emacs.d/elpa/org-20171127/ob-perl hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-perl
.emacs.d/elpa/org-20171127/ob-org hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-org
.emacs.d/elpa/org-20171127/ob-octave hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-octave
.emacs.d/elpa/org-20171127/ob-ocaml hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-ocaml
.emacs.d/elpa/org-20171127/ob-mscgen hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-mscgen
.emacs.d/elpa/org-20171127/ob-maxima hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-maxima
.emacs.d/elpa/org-20171127/ob-matlab hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-matlab
.emacs.d/elpa/org-20171127/ob-makefile hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-makefile
.emacs.d/elpa/org-20171127/ob-lob hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-lob
.emacs.d/elpa/org-20171127/ob-lisp hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-lisp
.emacs.d/elpa/org-20171127/ob-lilypond hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-lilypond
.emacs.d/elpa/org-20171127/ob-ledger hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-ledger
.emacs.d/elpa/org-20171127/ob-latex hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-latex
.emacs.d/elpa/org-20171127/ob-keys hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-keys
.emacs.d/elpa/org-20171127/ob-js hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-js
.emacs.d/elpa/org-20171127/ob-java hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-java
.emacs.d/elpa/org-20171127/ob-io hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-io
.emacs.d/elpa/org-20171127/ob-haskell hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-haskell
.emacs.d/elpa/org-20171127/ob-gnuplot hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-gnuplot
.emacs.d/elpa/org-20171127/ob-fortran hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-fortran
.emacs.d/elpa/org-20171127/ob-exp hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-exp
.emacs.d/elpa/org-20171127/ob-eval hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-eval
.emacs.d/elpa/org-20171127/ob-emacs-lisp hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-emacs-lisp
.emacs.d/elpa/org-20171127/ob-dot hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-dot
.emacs.d/elpa/org-20171127/ob-ditaa hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-ditaa
.emacs.d/elpa/org-20171127/ob-css hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-css
.emacs.d/elpa/org-20171127/ob-core hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-core
.emacs.d/elpa/org-20171127/ob-comint hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-comint
.emacs.d/elpa/org-20171127/ob-clojure hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-clojure
.emacs.d/elpa/org-20171127/ob-calc hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-calc
.emacs.d/elpa/org-20171127/ob-C hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-C
.emacs.d/elpa/org-20171127/ob-awk hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-awk
.emacs.d/elpa/org-20171127/ob-asymptote hides /Applications/Emacs.app/Contents/Resources/lisp/org/ob-asymptote
104 Emacs Lisp load-path shadowings were found