The
catacombs fix post will let you drop a teleporter stone in various locations, so you can restore the original data.000 file and teleport past the closed door, hatch, etc. The
hex editor post will let you teleport anywhere. Both are work-arounds for this problem, but do not re-open the closed doors/hatches. To properly fix this, you need to install the 1.34
patch (web site still says 1.33), and re-load a save from before installing the 1.33 patch. Depending of how far back you would have to go (assuming you have a previous save), it may be easier to work around the sealed locations than to re-do part of the game.
Both the coordinates and data files are available for the scrying room and the cellar of the house where Goemoe is imprisoned, in replies to the original posts.