Off of the dark, rainy node, the one with the owl's head that follows you. The map marks a secret on this node, and a grayed-out child node. Are they two different secrets?
Fez – Secrets of the Rainy ‘Giant Owl’ Room
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Related Solutions
The square symbols on the bell's four sides are numbers (1, 3, 6, and 10) that represent the amount of times to ring each side. Any order should work. The bell disappears forever, replaced by an anticube.
Confirmed, however, the sequence is R RT L RT RT A A R. The blinking lights also correspond to RT and LT prompts. Just follow the lights and you get a weird red cube with a piece missing from it.
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Best Answer
There are two "secrets": the four owl puzzle (denoted by a question mark on the node), and the subsequent anticube room.
Four owls
In four places, an owl appears at night. Speak with each one:
in the waterfall level near the pillar (green tree, first warp zone),
in the windmill level near the windmill (orange tree, air warp zone),
in the forest near the transforming cabin (green tree, outside rainy warp zone),
and outside the octopus-looking building containing the revolving model of the solar system and the counting cube (pink tree, temple/science warp zone).
These locations were shown on the walls of the fez-wearing elder's house (in Gomez's hometown, across the bridge).
Hidden room
After speaking with each owl, they fly to the rainy warp zone's giant owl room. When all four arrive, a panel reveals a door behind the owl statue opposite the entrance. It leads to another owl room with an anticube.