I have also applied a certain continuity to show a comparison. The problem here is that the continuity
weakens the comparison's contrast. Up to a certain degree amplifying the contrast makes the comparison clearer, hyperbole is also unwanted and unprofessional. In this case clear signalization of the different experiment and the change of parameters (plus getting rid of the noise) would be enough.
It is also worth think about if all the same data has to be compared or if only a selected subset makes the point. Remember that too much information has a toll on the working memory. If too much information is presented your audience most likely be overwhelmed processing it. Leave the full comparison for a later article or thesis, where the reading can consult the detail as much as it is necessary.
To present the right amount of data and content is to show professionalism. This professionalism has to be hold up the last slide: start strong, finish stronger. So avoid being cute and being funny.