Make your way into the West Pumping Station and swing through the sewers. Walking in the water will slow you down so it's much better to swing. You'll come to a large open room with water falling all over. On the right side of the room will be a large valve handle. Use your Web Rush on it to open the door at the far end. The door will open and Vermin will hiss at you (or something). The door will close. Use the handle again and then Web Rush through the door before it can close again.
On the other side, follow the tunnel and you will see a room on the right side. There will be maps around the room and against the wall will be a collapsed column. On this column will be a Magazine. Head back into the tunnel which will take you to a large room. "Interact" with the center of the room and you'll lay down a giant set of webs. Move from strand to strand and stop when you find on that vibrates or makes a sound. This is the direction you want to go.
The first place to go is room #44 so turn towards that one so you understand what the web does when you find the right one. Go to that room and you'll see Vermin again. He'll bolt and you'll be attacked by your first Infected. Infected can't be taken out like normal enemies. They can only be taken down with webbing. You have to trap them while they are stunned or use a signature move to take them out. Just keep pounding on this one until you've built your combo meter high enough that you can perform a Signature Move and then use it to finish the fight.
Turn to the right and go over the wall. You'll come to a room with lots of acid on the floor and a single red pipe over it. Go onto the pipe and find the Magazine on it. Head back to the hub room and use your webbing again to find Vermin. This time, head for room number 47. Go into that room and then climb up the wall to the small hole. Climb through there and into another room.
This time, you'll fight several infected. This is where you learn how useful the environment is against the infected. There's plenty of items around here to throw so grab one and throw it. This should instantly stun any infected around. Run around and web them. Repeat this until the fight is over. Hop up onto the ceiling and wander around this room until you find an opening to a giant room heading down. There will be two infected right next to it that you can catch with a stealth takedown (which is why you're on the ceiling). Take them down and hop into the hole.
Once in the hole, swing to the right and then go up in the next room. This will bring you to another tunnel with some acid which will lead back to the hub room. This time, you're looking for room #43. Swing through the acid hallway and it will bring you to a long room with a few infected in it. There will be some infected hunched in the far corner by the half-wall. In this corner will be a Magazine. Take down the infected in this room, grab the magazine and go over the wall.
This will put you in a two floor room. Pull yourself up to the ceiling and try to take down the infected on this upper level with stealth takedowns. If you catch their attention, remember that there's plenty of things to throw around up here including dumpsters and propane tanks.
Follow the only path on this upper level and over a half-wall. This tunnel will bring you to another room leading down but your attention will be drawn to some waste behind a fence to your left with a nearby Oscorp logo. Take a picture of the Oscorp Logo. Go to the bottom and through the doorway here.
You'll be in a room with a valve on the right wall and a big wall in front of you. There will be a red pipe on the left side that you can use to get through the wall. Follow the pipe and then look up and right to find another red pipe. Hop up to that and you'll be able to see a large door ahead of you. This is the door the valve opens BUT don't go back yet. Above that door is a ledge with a Sentry in really bad shape. Hop over to that ledge, back up a little and take a picture of the Sentry. Now head back and turn the valve. Use Web Rush to get back to the door quickly.
In the next room, find and go through the vent. This will bring you to a room where you'll see Vermin again and one infected. Vermin will run off, leaving you with the Infected. Take him out with the dumpsters here. Go through the nearby door. You'll come to a hallway with acid all over the walls and floor. The tunnel will go forward and there will be a split to the right. Try to get into that right split and on a broken column will be a Magazine. Follow the other path to come to a similar one to the previous room. This time, there will be two infected. Take them out the same way as you did last time. Turn to the right and you'll see another tunnel below.
Enter the tunnel but stay up high. Follow the red pipes until you come to a wall with a doorway below. Climb down the wall and through the door OR use two web rushes. Once toward the floor and then another upward away from it before you hit the floor. The Infected should never notice. Follow the tunnel around until it turns back to the right and shrinks a little. Go into the smaller tunnel. Look straight up and you will say a grate with a hole in it. Go through the grate and keep heading up until you come to a ledge with a Magazine on it. Head back down and follow the smaller tunnel.
The tunnel will turn left and you'll have to jump over a small railing. On the left will be a little hut. Take a picture of it. Also, notice the "Beenox" spray painted on the left side of the hut which is the name of the company that makes the game (just a neat easter egg). Continue along the tunnel and then Web Rush to the next red pipe that you see.
This will put you in a similar large tunnel as before with infected below. Move through it the same way that you did before and when you get to the end, you'll see Vermin far up above you. Follow him up. Go through the room at the top and drop into the large hole at the end. You'll enter a small tunnel that will take you to a large square room where you'll find Vermin. It's time for a smackdown.
Vermin
Make sure you take a picture of Vermin!
Vermin has a few simple attacks. He'll rush at you or spit acid at you which you need to avoid manually by using Web Retreat. He also has claw swipe attacks which can be evaded with the dodge button. If it says "Multiple Dodge" or similar, keep tapping the dodge button quickly until it disappears to dodge all of his attacks. His last real attack is easily avoided if you keep moving. He'll hop up into the acid on the ceiling and then come out above you but if you keep moving he'll miss by a lot.
To attack him, just use your Web Rush to attack him from a distance, then pound on him. Dodge or retreat as necessary. Just keep doing this and he'll come down quickly. However, your fight will soon be interrupted by two Sentries. These sentries will shoot at you if you are on the walls and pack shields. To take the shields down temporarily, shoot web at them and then attack them like any other sentry. However, this will be only temporary. The only way to remove it permanently is through an upgrade you can get later on.
Make sure you take a picture of these Sentries!
Back on the Streets
After taking out the sentries, you'll head back up to NYC. You'll see a bunch of rats running through the streets ahead of you. Follow this trail of rats to find Vermin again. You'll find him and follow him into another tunnel.
Follow him further into the tunnel and you'll come to another hub. Unfortunately, ther are no numbers this time so I can't really tell you which tunnel to take which is why I insisted that you learn how to hunt yourself. However, in this room, you should see that one path is a small round tunnel a little ways off the ground. Go through that tunnel and fall down the shaft. At the bottom, web shoot the giant fan and grab the Magazine in the small room. Stop the fan again, Web Shoot up the shaft and return to the hub room.
From the hub, you want to head towards the broken wall that has the yellow spray paint above it. Go through the hole and up to the top level. There will be a few Infected fighting Sentries in here. You can usually take out a couple of enemies with a stealth takedown here and then finish the two or so stragglers with easy. I would recommend that one of the two enemies you take out first would be the sentry now that they have shields.
You can also just crawl through here without fight if you'd like. Get through this tunnel however you like. Go through the room with broken train and shipping crates. Go over the half-wall and then the tunnel will turn downard. Go down and then at the end, go through the small doorway on the right side. This will take you back to the Hub.
Your next destination is the raised hallway just to the left of the small round elevated tunnel that lead to the Magazine earlier. Follow it past the "Cola" sign. You can fight the various enemies on the top and bottom floor if you like. Remember to make good use of the environment here. Go down to the bottom level and notice the train here. If you stand on the small white square, you can pull the train towards you and then get behind it for a Magazine. Go behind the fence and follow the room as it wraps to the left. It will come to a dead end but if you turn around, you should see a shipping containers with a small hole near the top. Crawl through this hole to get to the next room.
You'll find yourself in another room with fighting sentries and infected. Make your way to the larger section of the room with the acid and large blue dumpster. Just behind the dumpster will be another Magazine. Defeat or go past the enemies here and into the brick tunnel beyond. There will be another crawl space near the ceiling. Get up to it and crawl through but be careful to avoid the acid. This tunnel will take you to Vermin.
Vermin Part 2
For the most part, this fight isn't much different from the previous fight. The big new feature of this fight are the rats. If you stand in one spot for too long, the rats will pool around your feet and start dealing damage. This means that you need to keep moving and use Web Retreat if they start to pool. After that, this fight is very similar and only requires you to use the same strategies as before. Don't be surprised if the rats cause this fight to drag out a little longer.
*Achievement: Smell You Later