(Be sure to include the full problem statement next time.)
(1) Why negative? The field points down (thus is negative), the charge is positive: so the force and acceleration are both downward, thus negative.
(2) They are solving for the value of time that makes y = 0. Set that factor equal to zero and solve for t.
(3) Regarding what happened to the cosine: note that [itex]\theta[/itex] changed to [itex]2\theta[/itex]. (Review your trig identities for [itex]\sin\theta \cos\theta[/itex].)