t's unfortunate that you#re using v1.6 because there were a couple of bugs cleared up in v1.7 and v1.8 and one of them was in the "wine cocktails" area.
I don't know if this is what has caused your current problem, but if so then it will be necessary to load an old save.
Ultimately it would be better to play v1.8, but of course in such a large dungeon that may not be feasible.
In the event that this is not the case, I will outline how to complete that area.
Each red button opens a wall and reveals a square key.
1. The passages east and west of the central section close three pits and allow access to a red button in the southeast of the central section, when solved. To the west you must avoid a moving blue haze and click a small button on the wall. To the east you must step into the northerly haze (facing north) and immediately step backwards three times into a blue haze that appears behind you (hence the "backtrack" clue).
2. Drop down any pit, find a lever in the area below, then find a blue haze and teleport back up. The three pits in the northwest of the central section are now closed, allowing you access to another red button (and key). When you press this particular red button, it also opens a passage north leading to "wine cocktails" and a passage to the east.
3. "wine cocktails" is an anagram of "anticlockwise". Step on the floor plate and walk one full circuit in an anticlockwise direction. This opens two walls to the east. Pull both revealed levers and the central section will open. There is a wall text that says "or maybe not". Find the floor plate and walk one full circuit in a clockwise direction. This opens two more walls to the east. Again pull both revealed levers. This opens the central square of this area. Go there and pull another lever to open the final wall to the east. There is a floor plate in the wall you opened which closes three more pits and reveals another red button in the northeast of the earlier part.
4, Through the previously opened passage the east, there are a number of fireball shooters activated by small floor plates. Head north, avoiding the traps until you find a black button. The black button closes the final three pits, allowing access to the final red button. You should now have all the square keys.
However...
This does not lead you to an amethyst gem... it leads you to the ven rune.
You must have missed a gem, so here are the locations of the six amethyst gems...
1. Not hidden. It's in an alcove in a room that also contains The Zora necklace, a silver coin, and the Shield of Sky.
2. After a puzzle involving blue gems, a green haze shooting fireballs turns yellow with an amethyst gem inside when the puzzle is solved.
3. You move west through a series of blue hazes that teleport or spin you, to an amethyst gem in an alcove at the end.
4. Moving west of the garden, then north, east, north, west, you come to a 5x4 room full of pits and invisible pits. The gem is in the southwest corner.
5. After killing a golem with a lightning shooter, you can drop through a pit into an area full of skeletons. One has a brass key. Teleport up and open the door in the pit room. Then find four tiny buttons to remove four blue hazes a little further on. The floor plate in the hazes opens a wall with another brass key. Further on, the key opens three walking puzzles where you form a figure 5, a figure 9, and a zero in an anticlockwise/counterclockwise (CCW) fashion. The gem is to the south after the CCW (beware the lightning shooter).
6. Close to the end and to the east is a roughly rectangular area with fast lightning shooting between green hazes. Find buttons and floor plates to turn off the shooters. Levers open two doors to the north. There is a door with a pit beyond it that needs two solid keys to open. One key is held by a vexirk to the east. The other is held by a knight after solving a passage full of muchers and a room of blue hazes.
When you have opened the door, you must drop through the pit. In this area are two knights. You can kill or avoid them, but a teleport takes you up to the other side of the pit... and the final gem. Hidden in the area with the knights is a Dungeon Key (used in The Hive but not necessary for completion).
I could not access your map in the email you sent, so I'm not sure which gem you're missing.
