One throw too far
Your meter-main was designed to use a set of smaller sub-main disconnects instead of a single main disconnecting means, in accordance with NEC 230.71:
230.71 Maximum Number of Disconnects.
(A) General. The service disconnecting means for each
service permitted by 230.2, or for each set of service-entrance conductors permitted by 230.40, Exception No.1,
3, 4, or 5, shall consist of not more than six switches or sets
of circuit breakers, or a combination of not more than six
switches and sets of circuit breakers, mounted in a single
enclosure, in a group of separate enclosures, or in or on a
switchboard or in switchgear. There shall be not more than
six sets of disconnects per service grouped in any one location.
For the purpose of this section, disconnecting means
installed as part of listed equipment and used solely for the
following shall not be considered a service disconnecting
(1) Power monitoring equipment
(2) Surge-protective device(s)
(3) Control circuit of the ground-fault protection system
(4) Power-operable service disconnecting means
(B) Single-Pole Units. Two or three single-pole switches
or breakers, capable of individual operation, shall be permitted on multiwire circuits, one pole for each ungrounded
conductor, as one multipole disconnect, provided they are
equipped with identified handle ties or a master handle to
disconnect all conductors of the service with no more than
six operations of the hand.
However, the pair of single pole breakers in the lower-right that the inspector complained about means that you need 7 breaker throws to turn all the power off, which is one too many.
Evict the aliens!
Furthermore, the culprit breakers are a violation by themselves as they are GE THQLs, which are not listed to go in an Eaton BR panel. At this point, you might as well get a BR220 from the nearest supplier and have it slapped in in place of the culprits, killing two violations with one fix.
And yes, a two pole breaker can feed two completely separate 110V circuits
There is nothing in the NEC that prohibits a two pole breaker from feeding two independent branch circuits from the opposite legs it provides.