Here's what I have in my vimrc to workaround these x11 issues(adjust the mappings to your likings):
call system('xclip -i -selection clipboard', @t)
let @t = system('xclip -o -selection clipboard')
vnoremap <silent> <a-y> "ty:call X11Yank()<cr>
vnoremap <silent> <a-d> "td:call X11Yank()<cr>
nnoremap <silent> <a-p> :call X11Paste()<cr>"tp
vnoremap <silent> <a-p> d:call X11Paste()<cr>h"tp
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