As has recently been pointed out, the pre-statted Epic Spell Superb Dispelling has a limitation that the Dispel Seed ought not to grant. Ignoring the DM's ability to approve anything, what other pre-statted Epic spells do not follow the rules of their corresponding seeds?
None of them.
The epic spell rules are, in summary, "make some stuff up".
The spell seeds are interesting, but do not have a strict mechanical effect. They are suggested parts of a spell that you make up in cooperation with your DM.
So, given that, literally nothing falls outside the rules of "make some stuff up".
\$\begingroup\$ This is quite plausible. For example, the Time Duplicate Epic Spell plainly says that its DC has an ad hoc component. However, I'd be surprised if none of them just use the seeds exactly as intended. \$\endgroup\$– J. MiniMay 4, 2022 at 20:16
\$\begingroup\$ @J.Mini there’s a negative in the question. All epic spells conform to the rules (because the rules have no real constraints). None of them “don’t follow” the rules. I have the same intuition as you that some examples probably follow a reasonably consistent approach to using the seeds, but I would also be very surprised if anyone came up with a rigorous, rules-based explanation for which seeds are even applicable. \$\endgroup\$– fectinMay 5, 2022 at 13:25