This sort of thing usually happens when you have correlated predictors. Apart from examining the correlation matrix of you predictors, one way to check for high correlations is too look at the Principal Components of your predictors, and the amount of common variation in the first few components.
Another thing to note is that the coefficients can only be interpretted as a rate of change by assuming that all other predictors in the model stay unchanged. However, if all of you variables are positively related to the outcome variable (as shown by the single variable regressions), then it is likely that they are also going to be positively related to each other. So this means that if you increase (decrease) one predictor, the other predictors are likely to also increase (decrease) as well. This wrecks the usual interpretation of the betas, because it makes the values of all the other betas important.
I assume you want to use your univariate regressions to validate or understand your multivariate regression better. One way you can do this is to plot the predicted probabilities against each predictor variable. This should still show a positive relationship with each dependent variable.
From a technical perspective, the multivariate regression satisfies additional constraints compared to the regression with just one variable. Assuming that you're using the logistic link function, these constraints take the form
$$\sum_{i=1}^{n}n_i(f_i-p_i)x_{ij}=0\;\;\;\;\; j=0,\dots,q$$
Where $f_i$ is the observed proportion of successes for the ith data point; $n_i$ the number of units the proportion is based on for the ith data point; $x_{ij}$ is the value of the jth predictor for the ith data point; $q$ is the number of predictors; and $p_i$ is the predicted probability for the ith data point, which is a function of the predictors $x_{i0},x_{i1},\dots,x_{iq}$ and their coefficients $\beta_0,\beta_1,\dots,\beta_q$. I have used $x_{i0}$ and $\beta_0$ to denote the intercept term of the model, so $x_{i0}=1$.
These are the set of equations that define the regression coefficients (i.e. betas). There is one equation for each predictor variable. If we define a residual as the difference between the observed and predicted counts $r_i=n_i(f_i-p_i)$, then what the equations are doing is forcing the correlation between the $r_i$ and $x_{ij}$ to be equal to zero.
The regression with only one predictor has two constraint equations: one for the intercept term, and one for the single predictor variable - call it $x_{i1}$. For your case you say all of the betas are positive, which means that the predicted probability must be an increasing function $x_{i1}$. We can use this and the constraint equation to deduce that the observed count $n_{i}f_{i}$ must also tend to increase as $x_{i1}$ increases.
However, note that adding an additional variable to the model, say $x_{i2}$, does not change the constraint which must be satisfyied from using $x_{i1}$. Now we now from the above paragraph that $n_if_i$ tends to increase as $x_{i1}$ increases. This means that the predicted probability $p_i$ will also need to increase as $x_{i1}$ increases as well. The negative value for the coefficient makes it seem like maybe this isn't true. In fact, what the negative coefficient actually means here is that $p_i$ is increasing with $x_{i1}$ too much when only $x_{i2}$ is included in the model.
