Matt,
Sorry for the very late reply. Thank you for your help. I'm sorry I did not include any pictures, I did not see a place on the original submission.
[quote user="Matt Guibord"]The 1-MHz signal you see might be be the clock coupling to the output. A screenshot is often helpful.[/quote]
I think this is exactly what is happening, I have included two shots in this imgur.com link. Note, there are two pictures. The first is a zoomed in picture, where the green trace is my 1 MHz clock, and the yellow is the output. As you can see, the output is changing polarity every clock cycle. I am not sure why the clock is coupling to the output, as I didn't see anything on the block diagram that would cause this. If the clock is coupling to the output, I don't see how this would be the transformer blocking the signal (that's general confusion, I'm not trying to be snide).
The second picture in the link shows the sinewave envelope caused by my alternating polarity output.
I'm going to try a 50 MHz clock, and generate a 15 MHz sine wave to see if that solves my problem. If it is the transformer, this would be a lot easier than changing the configuration of the circuit (I am not very skilled with surface mount soldering).
Can you think of any other reasons my clock may be coupling with my output, or why I would be going negative?
Thank you much,
Nicholai