fix: remove deprecation warnings for `wrangler init` #4512

Job	Run time
Checks	0s
Add PR to project	3s
Checks	4m 55s
Tests (macos-13, ./fixtures/*)	7m 47s
Tests (macos-13, ./packages/*)	5m 44s
Tests (ubuntu-latest, ./fixtures/*)	4m 52s
Tests (ubuntu-latest, ./packages/*)	4m 6s
Tests (ubuntu-latest, ./tools)	32s
Tests (windows-latest, ./fixtures/*)	25m 50s
Tests (windows-latest, ./packages/*)	6m 32s
	1h 0m 21s

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