Perplexed as you ponder in bed (7)
I believe the answer is:
bemused
'perplexed' is the definition.
(similar in meaning)
'ponder in bed' is the wordplay.
'ponder' becomes 'muse' (synonyms).
'in' means one lot of letters goes inside another.
'muse' going into 'bed' is 'BEMUSED'.
'as you' acts as a link.
This may not be correct. Some or all of it may belong to another bit of the clue.
Can you help me to learn more?
(Other definitions for bemused that I've seen before include "Confused, bewildered" , "Deep in thought" , "Puzzled" , "In the course of puzzling" , "Stupefied" .)