Non-radioactive nucleotide labeling compatible with reverse transcriptase?
Biotin-labeled nucleotides can be incorporated into cDNA by reverse transcriptase.  Jena Bioscience, a provider of biotin-labeled nucleotides, has a table showing which nucleotide chemistries have been successfully used with reverse transcriptase, though you'll have to delve into the data sheets of specific products to get the references.

One reference provided on the product page for biotin-11-dCTP:

APOBEC3G Inhibits Elongation of HIV-1 Reverse Transcripts

This study looks at natural endogenous reverse transcription (nERT) in HIV.  From the methods:


  For this assay, a nERT reaction was performed essentially as above, with the exception of the dNTP addition: pelletted virions were resuspended in PBS, 2.5 mM MgCl2, 15 µg/ml melittin and 0.5mM biotin-11-dCTP (Jena Bioscience), and incubated at 37°C.