Ah, sorry, there was a line that needed to be comment out as well.
Line 4899 - this.drawItem(index + 1);
That line draws the craft button. Comment it out, as the change I had you make draws the craft button in index 4 instead of index 5.
Also, line 6217 does a check to see if you've pressed ok on an ingredient slot, or the craft button by comparing the index, you'll need to change the <= 3 on that line to a <= 2 so that it knows you're hitting the craft button that we've moved up an index slot.
Greetings. Sorry it took a bit to get back to you on this. I found a slightly more elegant solution than what I was previously suggesting.
Since I already went to the trouble of testing it out myself, I already have a patch file created. Simply load it after the crafting system plugin and it will hide the fourth slot, and skip over index 3 on the list.
It can be downloaded from the Crafting System main page, labeled as the three ingredient slot patch.