I think "learn" should lead. "(in depth)" seems unnecessary.
I gave up trying to split this into senses. It's a rather fine distinction and the glosses overlap quite a bit.

@@ -23 +22,0 @@
-<gloss>to study (in depth)</gloss>
@@ -24,0 +24 @@
+<gloss>to study</gloss>

It's a fine line. 中辞典 splits it into 3 senses and GG5 has it as one. I wouldn't object to it being split, but with over 200 example sentences I wouldn't relish reindexing them.

[vt]: meikyo, smk, iwakoku

Some of the kokugos split into multiple senses ("to receive an education (at a university)", "to learn a lesson from an experience", etc.).
Prog also splits into 3 senses.
Not sure how much of that is needed.

Google N-gram Corpus Counts
╭─ーーーー─┬───────────┬───────╮
│ 学ぶ　　 │ 9,997,687 │ 98.3% │
│ 學ぶ　　 │     2,520 │  0.0% │ - [oK] to [sK]
│ まなぶ　 │   173,126 │  1.7% │
├─ーーーー─┼───────────┼───────┤
│ 学んで　 │ 1,885,862 │ 99.6% │
│ 學んで　 │       486 │  0.0% │
│ まなんで │     7,830 │  0.4% │
╰─ーーーー─┴───────────┴───────╯

@@ -12 +12 @@
-<ke_inf>&oK;</ke_inf>
+<ke_inf>&sK;</ke_inf>
@@ -21,0 +22 @@
+<pos>&vt;</pos>