The equation I am talking about is $$ \epsilon y''(x)+y(x)+1=0,y(0)=0,y(1)=1 $$
The $+1$ is not essential as $y(x)$ can be decomposed into $1 + y_1$, but is kept here for a more direct comparison with the other example below. This equation takes a more innocent look if multiplied by $1/\epsilon $ that yields $y''(x) + 1/ \epsilon y(x) + 1/\epsilon = 0$, sine/cosine function follows (the figure below shows solution with $\epsilon $ = 0.01, which corresponds to a period $2 \pi \sqrt{\epsilon} = 0.62$).
Some may say as $\epsilon $ decreases, the frequency gets higher and the curve get steeper, but there is no boundary layer for at least two reasons: first, this is a global behavior; second, typical boundary layers has an exponential rate of change that limit it to a narraw region (then merges smoothly with the outer solution). The example to be compared against is one with the second term $y(x)$ replaced by $y'(x)$, clearly boundary layer develops (figure also uses $\epsilon = 0.01$).

Buy why? The only distinction is there is no first order term in the first equation, but this argument appears to be very superficial.

You have a global breakdown in your solution here, which means a normal boundary layer expansion wont work, because the solution is rapidly varying for all $x$. If you do a boundary layer scaling you get $y''+y+1=0$, which is valid anywhere. So you can't use use boundary layer theory, and have to use WKB theory. The WKB expansion is $$ y(x)=\exp\left(\frac{1}{\delta}\sum_{n=0}^{\infty}\delta^nS_n(x)\right), $$ where $\delta$ is a small parameter that we will have to pick later. Then, find it's second derivative, $$ y''(x)=\left[\frac{1}{\delta^2}\left(\sum_{n=0}^{\infty}\delta^nS_n'(x)\right)^2+\frac{1}{\delta}\sum_{n=0}^{\infty}\delta^nS_n''(x)\right]\exp\left(\frac{1}{\delta}\sum_{n=0}^{\infty}\delta^nS_n(x)\right). $$ Now, as you noted, you can write your equation as $\epsilon Y''(x)=-Y(x)$, ($Y(x)=y(x)+1$) and I'll use that form too, it's much easier to work with. Substituting the expansions in, and removing the exponential terms, gives $$ \frac{\epsilon}{\delta^2}\left(\sum_{n=0}^{\infty}\delta^nS_n'(x)\right)^2+\frac{\epsilon}{\delta}\sum_{n=0}^{\infty}\delta^nS_n''(x)=1. $$ Now we have to pick the scale of $\delta$. Using dominant balance, it shouldn't be too hard to see that we require $\delta^2=\epsilon$ so that the largest term on the left balance the right of the equation. If you substitute $\delta=\sqrt{\epsilon}$, and expand the equations in powers of $\sqrt{\epsilon}$, the first two equations are, $$S_0'^2=-1$$ and $$2S_0'S_1'+S_0''=0.$$
The solution to the first equation is $$S_0=Aix-Bix,$$ and the second equation is solved simply as, $$S_1=C.$$
Putting these first two approximations back into the expansion for $y$ gives $$Y=\exp\left(Aix/\sqrt{\epsilon}-Bix/\sqrt{\epsilon}+C\right)=A^*\sin\left(x/\sqrt{\epsilon}\right)+B^*\cos\left(x/\sqrt{\epsilon}\right) $$ and the boundary conditions (I'm using $Y(0)=1$, $Y(1)=1+k$, equivalent to $y(0)=0$ and $y(1)=k$) give $$Y=\cos\left(x/\sqrt{\epsilon}\right)+\frac{1+k-\cos\left(1/\sqrt{\epsilon}\right)}{\sin\left(1/\sqrt{\epsilon}\right)}\sin\left(x/\sqrt{\epsilon}\right).$$
Going back to your equation for $y(x)$, this is $$y=\cos\left(x/\sqrt{\epsilon}\right)+\frac{1+k-\cos\left(1/\sqrt{\epsilon}\right)}{\sin\left(1/\sqrt{\epsilon}\right)}\sin\left(x/\sqrt{\epsilon}\right)-1.$$
It turns out that this is the exact solution to the equation. This is because if you write the equations as $\epsilon y''+Q(x)y=0$, $Q(x)=1$. The eikonal equation in general is $$S_0'^2=-Q(x),$$ which has solutions $$S_0(x)=\pm\int^x\sqrt{Q(t)}\mathrm dt$$ and correspondingly, $$S_1(x)=-\frac{1}{4}\ln\left(Q(x)\right).$$ In this case, $\ln\left(Q(x)\right)=0$ of course, and so all the higher order equations have only the trivial solution.
A great reference for this is Bender and Orszag's book "Advanced Mathematical Methods for Scientists and Engineers".