I had the same problem last year when I brought my chillies indoors, they became infested with green aphids, so I had to chuck them out.
This year I have 3 lovely Habanero plants that have been in the greenhouse all summer, they are starting to fruit and am planning on bringing them in.
Also 2 Jalapenos, will be watching this thread.

Asking your questions at the Hot Pepper forum might also get you some responses.

I've been growing six of those Black Pearl peppers all summer in containers. They've grown so well and are filled with mostly black but also some ripe red peppers. I'm not planning to try to winter them although they are very ornamental.

I'm not really a fan of really hot food, but I thought maybe I'd add just a little into the spanish rice (gotta use up all those tomatoes) I'm going to make tonight. So I get one of those ripe peppers and cut a bit off. To taste it, I rub the cut end only twice across the tip of my tongue. YIKES. That is NOT going in my spanish rice.

I think I'll save seed from them. I've read the Black Pearl are open pollinated, and with no other peppers around to cross with, they should come true, right?

Here is a link that might be useful: GW hot pepper forum

kashacres, first sign of any bugs mist them with Scotts EcoSense Insecticide,(especially the underside of leaves) then watch for any eggs to hatch in a week to 10 days. As for trimming I had a 4 foot green pepper I took in one year and cut it almost in half. The next year it will be bushier

Pudge, I grew the Black Pepper last year and saved seeds from the red ripe peppers and they stayed true (with no other peppers around to cross with). Only thing is I found that my peppers were not very hot, not the 4000 scovilles they claimed(maybe this year)
I'm not really a fan of really hot food also. Loved the look of the plant with the new green growth changing to black and the round pepper balls turning to red