1999 Toyota 4Runner 4Runner possible missfire?

Recently, I went under the intake and changed my knock sensors because I was getting codes for them, and I went and put it back together. My car ran fine until I realized I had two tubes mixed up, I believe they were the ones that come to the intake manifold into the engine block, and the one that goes from the air intake into somewhere else that I can't remember. My car started knocking soon after start up and I came to the conclusion that my injectors were bad. It cranks fine and idles almost perfectly until I switch it into drive and the acceleration hesitates and when I floor it gets a giant burst of acceleration and then it bogs down. I think I might need a new crankshaft pos. Sensor (but my check engine light isnt on.) In the image below, its the two tubes right under the throtle body.