probably? the concept of CE is already close to Nen, so i don't know why we're not equalizing it. but either way, it's more likely for Meruem to straight up develop blood manipulation, shrine, and/or soul attacks by eating part of Yuji than just developing CE. for example, when absorbing Youpi's and Pouf's aura, he didn't inherit their Nen categories and proficiency, he inherited their exact abilities and augmented them to a higher level. he could also use them without taking the time to learn or study them.
basically, yuji better dodge everything.