op-deployer: `--proof-maturity-delay-seconds` is ignored for custom intent

**Bug Description**
`op-deployer bootstrap implementations --proof-maturity-delay-seconds` is not reflected in the `state.json`, because the [`deploy-implementations` pipeline](
https://github.com/ethereum-optimism/optimism/tree/d509f44f487b35e67bf6e0050ebc0ee06ac8b944/op-deployer/pkg/deployer/apply.go#L307) of the `op-deployer apply` step (which can't be skipped) creates an `OptimismPortal2` implementation [with standard delays](
https://github.com/ethereum-optimism/optimism/tree/d509f44f487b35e67bf6e0050ebc0ee06ac8b944/op-deployer/pkg/deployer/pipeline/implementations.go#L37) -- and it's this implementation that ultimately ends up in `state.json`.

The same also happens with `--dispute-game-finality-delay-seconds`.

**Steps to Reproduce**

```console
$ head -n1 deploy/sepolia/intent.toml
configType = 'custom'

$ op-deployer bootstrap implementations \
--proof-maturity-delay-seconds 36 \
--dispute-game-finality-delay-seconds 60 \
--outfile deploy/sepolia/implementations.json
# ...

$ cast call $(jq -r .OptimismPortalImpl deploy/sepolia/implementations.json) 'proofMaturityDelaySeconds()' | cast to-dec
36

$ cast call $(jq -r .implementationsDeployment.optimismPortalImplAddress deploy/sepolia/state.json) 'proofMaturityDelaySeconds()' | cast to-dec
604800
```

**Expected behavior**

* `optimismPortalProxyAddress` in `state.json would point to the Optimism Portal instance created by the `bootstrap implementations` step, with the correct delays set.

**Environment Information:**
op-deployer @ f2d662612014c125b2e9477052ff44184a640074

**Configurations:**

**Logs:**

**Additional context**

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