I agree with DrZoidberg.
Consider these possibilities:
1) modifying religion would be desirable if defeating it is not possible.
2) an earth-adoring, science-informed religion with no old myths might grow in popularity. Those who find secular life "arid" but fantastical religions silly might find a "home" in this if they knew the alternative is there (among others like modern Buddhism). Where, now, there's a stark but needless dichotomy.
#2 feels a necessity to my inborn nature, and I doubt that I'm a rare bird in this regard. People ask “Why add that spirituality stuff on top 'plain’ reality?” and it strikes as a misinformed (ideological) question. I’m not “adding” a thing, I’m just not vivisecting myself to strive for an excess of rationality.
The traits of "religion" are often depicted as supernaturalism, dogmatism and veneration of old texts. But the exceptions in world religions prove that's not true. I only know one trait common to all religions: veneration of something more-than-human. They tend to want to communalize that, to bond a community.
The ugliness in religion is the ugliness in politics. Ideologues, especially the conservative ones, get atavistic and try to enforce it. That's something inside humans that needs fixing. Trying to obliterate a facet of human expression that's prone to that problem is not a fix to that problem.
OH, if you mean religion simply in terms of group values, beliefs, and rituals that recognize the ineffable nature of human consciousness and experience, along with some humane tenets such as respect for the environment and other species, then yes, I agree. These days, we tend to talk about religion in terms of ideology and identity, not spiritual enlightenment. The kind of religion you describe doesn't often make headlines, and if its teachings include some realistic truth-finding tools and respect for autonomy as holy sacraments, it doesn't need to rely on tribalism for cohesion, which is crucial to survival of outmoded, archaic, and practically irrelevant traditions.
But Dr. Zoidberg was talking in terms of successfully destroying gods, and of secular society being "more like religion." He did not specify what aspects of religion would serve us (since "secular" does mean "not religious" after all) or in what ways other than how to spread an ideology. The things that make the religions we object to so objectionable come part and parcel with the very cognitive pitfalls that make religion such a virulent disease to begin with. There was an allusion in Dr. Z's post to preachers in church speaking to the collective animal brain being a powerful tool of persuasion, which is true, but it's not necessarily desirable as a method of proliferating humane values.
I do agree with his statement that manipulation is a day to day reality of human interaction, though. There is no time when we are not manipulating each other in our communications to some extent, and in ways we don't even fully understand. Some conversations about manipulation deserve some qualification of the word. Appealing to fear and prejudice is a form of manipulation that I object to in general, regardless of how prevalent it is. If someone thinks "secular" should become a universally meaningful, socially cohesive culture that encompasses all of human experience, then relying on traditional, cognitively unaware, reflexive behaviors as means of cohesion and stability (such as going to church to learn about a petty, judgmental god) has been proven weak and vulnerable to much pestilence not the least of which is fascism.