Read Munkres carefully. He writes:
Let $X$ be a set with a simple order relation and $|X|>1$. Let $\mathcal{B}$ be a collection of the following:
Intervals of the form $(a,b)$ in $X$.
Intervals of the form $[a_0,b)$, for $a_0$ the smallest element of $X$, if one exists.
Intervals of the form $(a,b_0]$ for $b_0$ the largest, if one exists.
Then $\mathcal{B}$ is a basis for the order topology on $X$.
It does not say intervals of the form $[a,b)$ and $(a,b]$ for any $a,b$, but only when the endpoints are the extrema of the order relation.
For example, take $[0,1]$ with the subspace topology in $\mathbb{R}$ with the standard topology. Then open sets which form a basis are of the form $(a,b), 0<a<b<1$, $[0,a)$ and $(b,1]$. This is what he means.
The order topology is meant to mimic our understanding of the order topology on $\mathbb{R}$. We want sets to be open which are unions of "open intervals", i.e. not containing their endpoints.
Edit: I'll add a bit more.
If you want the question as initially stated, then in fact every subset is open, so this is the discrete topology. To see this, if $[a,M)$ and $(-M,a]$ are in the basis for each $a, |a|<M$, then $\{a\}=[a,M)\cap (-M,a]$ is an open set for any $a$.
An interesting note, though this is a bit more advanced, is that you CAN include one of those half open intervals, either $[a,b)$ or $(a,b]$, and get a topology which is not trivial or the standard order topology. When we take $\mathbb{R}$ and include sets of the form $[a,b)$ in the basis we get the so called lower limit topology. This has many interesting properties: it is non-metrizable, it doesn't have a countable basis, and is totally disconnected, all properties we normally associate with $\mathbb{R}$ with the order topology.