AutoX264 (Multi Encoder GUI for X264) v.18

[Adub]

mencoder -vf harddup,crop=320:176:0:0,scale=288:160 -sws 2 -aspect 1.7727 -of rawvideo -o autox264.h264 -nosound -ovc x264 -x264encopts crf=18:threads=auto:bframes=3:direct_pred=auto:me=hex:subq=6:frameref=3:weight_b:trellis=2:mixed_refs:level=4 -sub "/home/****/Desktop/test.srt"  "/home/****/End of the World 1.MP4.m4v"
mencoder -mc 0 -noskip -aid 1 "/home/****/End of the World 1.MP4.m4v" -ovc copy -oac faac -faacopts br=96:mpeg=4:object=1 -channels 2 -af volnorm=2 -of rawaudio -o autox264.aac
MP4Box -add autox264.h264 -fps 30.000 -add autox264.aac "/home/****/Desktop/test.mp4"

And it seems that my player was reading the subtitle files from the same directory, because the name was the same for both files. That would explain why I thought it was working earlier. I just have to rename my output mp4 to something different and the subs are no longer picked up externally.