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Clean up `identify_variables` / `identify_mutable_parameters`; deprecate `SimpleExpressionVisitor` #5941

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Run time

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Job	Run time
lint/style-and-typos	48s
linux/3.9/bare-env	9s
linux/3.9	27m 51s
linux/3.10	27m 29s
linux/3.11	26m 28s
linux/3.12	34m 10s
linux/3.13	33m 2s
osx/3.9	18m 22s
osx/3.10	20m 45s
osx/3.11	19m 51s
osx/3.12	17m 25s
osx/3.13	18m 43s
win/3.9	56m 44s
win/3.10	1h 3m 15s
win/3.11	55m 41s
win/3.12	58m 1s
win/3.13	53m 42s
linux/3.11/conda	22m 33s
linux/3.10/mpi	9m 20s
linux/3.12/cython	23m 46s
win/3.9/pip	28m 28s
linux/3.11/singletest	24m 9s
linux/3.9/slim	4m 19s
linux/3.12/numpy2	5m 59s
linux/3.10/pyutilib	26m 59s
linux/pypy-3.9	1h 9m 15s
process-coverage-linux	1m 24s
process-coverage-osx	1m 24s
process-coverage-win	1m 48s
	12h 31m 50s