Fix EOFError in non-interactive init flows #394

Job	Run time
check-linked-issue	3s
determine-changes / detect	8s
coverage	6m 37s
prek / prek	18s
type-check	28s
unit-tests (ubuntu-latest, 3.9)	9m 15s
unit-tests (ubuntu-latest, 3.12)	6m 46s
unit-tests (ubuntu-latest, 3.14)	6m 16s
e2e-python (bubble-sort-unittest, end_to_end_test_bubblesort_unittest.py, 40)	9m 30s
unit-tests (ubuntu-latest, 3.11)	6m 56s
e2e-python (bubble-sort-pytest-nogit, end_to_end_test_bubblesort_pytest.py, 70, true)	23m 55s
e2e-python (coverage-e2e, end_to_end_test_coverage.py, black)	4m 13s
unit-tests (ubuntu-latest, 3.10)	7m 30s
e2e-python (tracer-replay, end_to_end_test_tracer_replay.py, 10)	6m 47s
unit-tests (ubuntu-latest, 3.13)	7m 32s
e2e-python (benchmark-bubble-sort, end_to_end_test_benchmark_sort.py, 5)	16m 25s
e2e-python (init-optimization, end_to_end_test_init_optimization.py, 10)	2m 20s
unit-tests (windows-latest, 3.13)	9m 58s
e2e-python (futurehouse-structure, end_to_end_test_futurehouse.py, 5)	2m 10s
e2e-python (topological-sort, end_to_end_test_topological_sort_worktree.py, 5)	1m 51s
e2e-python (async-optimization, end_to_end_test_async.py, 10)	20m 39s
e2e-java	-1s
e2e-js	-1s
required checks passed	5s
	2h 29m 40s

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