Try reading the article.
"may not follow with all our thinking" on the case. To clarify: those quoted words actually came after Redwood had referred to the assumption that Madeleine had been abducted.
I don't quite understand the issue.
The context is presumably a media briefing. Redwood presents an update. This was roughly at the time of the news that pot-belly man had sexually assaulted several children in the Algarve, wasn't it?
If so, pot-belly man (or indeed anyone else) could have been involved, and so it's feasible that the perp may not have been content to sit on children's beds, nor even to molest them and leave.
If questions were taken, an obvious question for a hack to ask would be whether it had been excluded that she could have died in the apartment or could even have died after having disappeared from the apartment.
Redwood admits that there is a doubt as to whether she was taken alive or not.
At least, that's how it sounds to me in the context of a press briefing.