Can I easily change the colour of one CMYK channel?

Hi. I'm still working in Photoshop CS6.
I'm working on packaging that requires two blacks to print on the pack, so I'm trying to just quickly change the Black channel in the photoshop file to a Pantone Black. Now it's easy to duplicate the black layer and rename it as a spot black and then just delete the normal black layer. The problem I'm having though, is that the image has a transparent background with different levels of transparency, and as soon as I delete the original process black channel it completely flattens the image so I lost all transparency. Does anyone know if there's an easy way to replace the channel without losing transparency, or if there is any way to store the transparency of the image so I can delete it out of the background again after I've replaced the black channel? Any help would be greatly appreciated.
Thanks

Hi, sorry. I did say layer where I meant channel. I'm just trying to replace the black channel in the CMYK with a spot colour. But that changes the transparent .psd into a multichannel file, which then flattens the image onto a white background and loses all transparency. All I want to know is if there is a way to create a multichannel image with transparency in photoshop. Unfortunately I can't post the image yet, as the packaging upgrade is not in market yet. I've found a workaround for now, but once the product is in market I'll upload some screenshots to see if there is a way we can figure it out, or I'll create a different image some time when I have a chance.

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