Is the leak from the top end of the step or from the lower side. I ask this because the deck will drain from the bow to at least to amidships on your boat & with water following gravity, if the leak is from the lower step, it is not coming from the forward section. However, if the leak is from the upper part of the step you really cannot rule out the leak originating from anywhere forward of that point, this has been pointed out by others in this post.
Where you see water exiting may not be where it entered, it may be the lowest point on your deck. Do not automatically assume that the stern of the boat is the lowest point for drainage just because that is where the scuppers are. I got a very nasty shock when slipping my boat and being caught in a storm, although the boat was level on the blocks the picture shows the true level of the boat. Note, in this picture the aft scuppers were still above the water level, so the mid ships of my boat is the lowest point as far as gravity is concerned, it is also where my fuel/water filler pipes are located, not really a good design point. In my case that resulted in some rusty fuel tanks.I assume you have checked the top of your tanks.
To give you an idea, on my boat which had water issues, the water had travelled a good 15 feet from the source of the problem, which in my case was a faulty seal around the foot winch at the bow, and I suspect it had being doing that for a considerable period, yours being a newer boat hopefully won't have that problem.
As others have also said, be very careful about trying to 'lift' the Teak for any reason, it is brittle and will splinter, the stuff they used to stick down the decks with will not let go easily.
In regard to my flybridge covers they were put on by the PO, and are not the most flattering part of the boat to be honest, but they are immensely useful as we do all our driving from the upper helm, and as we also live in a hot climate the shade and wind protection is excellent. I have this theory that those of us with aft cabin boats tend to use the flybridge more often because it is much easier to access than those with Europa/sedan style boats. I have no idea where your cruising grounds are, but if you are in a warm climate, 'clears' etc are well worthwhile IMHO.