Afaik, there is no way to auto say yes for the pops up, but you can script it to auto reload remote.ini file.
on *:START:.timerscriptcheck -o 0 5 scriptcheck
alias scriptcheck {
var %t $calc($timer(scriptcheck).delay / 1000), %i 1
while $script(%i) {
var %s $v1
if $calc($ctime - $file(%s).mtime) < %t { .reload -rs $+ %i $qt(%s) }
inc %i
}
}
In order to make this works, you need to turn off monitor file changes (In script editor, press alt+O then untick "monitor file changes" option), otherwise you will still get the pops up.