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Molecule Man was more powerful than the LT ... On Panel:
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Here's Reed Richards' data-entry on the Molecule Man:
"Reputed to be the most powerful being in this Multiverse,
at one time could control all matter, space and energy"
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Here's Uatu stating the same thing:
"And now that he IS and KNOWS he IS mightier than all other beings of the Multiverse"
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In Handbooks too!
Molecule Man was more powerful than the LT ...
in the official Marvel Handbook of 1985:
"Molecule Man, according to Uatu, is the most powerful being in ..."
... "Earth's Multiverse"
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In fact,
the Official Marvel Handbook clearly states:
"The ONLY known limit,
to the amount of matter & energy that the Molecule Man can control,
is that is somewhere beneath the level that the Beyonder could control"
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So literally according to Marvel,
ONLY the Beyonder was above the Molecule Man.