The writers did a great interview where they were asked about this. Some of it included them giving their personal impressions--for instance, some people questioned whether Clark/Philip was genuinely frustrated with Elizabeth or just doing what she asked (this actually is how Martha likes it so he did that) and they both said that they thought he was just doing it the way Martha liked it, as we've seen.

More importantly, though, they said that the scene was definitely still important and informing a lot of scenes through the season and that it would continue to be important. Basically, they hadn't put it behind them, really, because it got into so many upsetting issues for them.

So whether they reference it verbally again you're right to see it as something they didn't just put behind them, even if they continued to function normally.